=============================================================================== About this build: this rebuild has been done as part of reproduce.debian.net where we aim to reproduce Debian binary packages distributed via ftp.debian.org, by rebuilding using the exact same packages as the original build on the buildds, as described in the relevant .buildinfo file from buildinfos.debian.net. For more information please go to https://reproduce.debian.net or join #debian-reproducible on irc.debian.org =============================================================================== Preparing download of sources for /srv/rebuilderd/tmp/rebuilderdRtDovd/inputs/cctbx_2026.4+ds2+~3.28.0+ds1-2_amd64.buildinfo Source: cctbx Version: 2026.4+ds2+~3.28.0+ds1-2 rebuilderd-worker node: osuosl44-amd64 +------------------------------------------------------------------------------+ | Downloading sources Sat, 16 May 2026 13:02:21 +0000 | +------------------------------------------------------------------------------+ Get:1 https://deb.debian.org/debian trixie InRelease [140 kB] Get:2 https://deb.debian.org/debian-security trixie-security InRelease [43.4 kB] Get:3 https://deb.debian.org/debian trixie-updates InRelease [47.3 kB] Get:4 https://deb.debian.org/debian trixie-proposed-updates InRelease [57.6 kB] Get:5 https://deb.debian.org/debian trixie-backports InRelease [54.0 kB] Get:6 https://deb.debian.org/debian forky InRelease [151 kB] Get:7 https://deb.debian.org/debian sid InRelease [189 kB] Get:8 https://deb.debian.org/debian experimental InRelease [91.7 kB] Get:9 https://deb.debian.org/debian trixie/non-free-firmware Sources [6,552 B] Get:10 https://deb.debian.org/debian trixie/main Sources [10.5 MB] Get:11 https://deb.debian.org/debian-security trixie-security/main Sources [152 kB] Get:12 https://deb.debian.org/debian-security trixie-security/non-free-firmware Sources [696 B] Get:13 https://deb.debian.org/debian trixie-updates/main Sources [2,788 B] Get:14 https://deb.debian.org/debian trixie-proposed-updates/main Sources [904 B] Get:15 https://deb.debian.org/debian trixie-backports/main Sources [211 kB] Get:16 https://deb.debian.org/debian trixie-backports/non-free-firmware Sources [3,172 B] Get:17 https://deb.debian.org/debian forky/main Sources [10.7 MB] Get:18 https://deb.debian.org/debian forky/non-free-firmware Sources [8,488 B] Get:19 https://deb.debian.org/debian sid/non-free-firmware Sources [10.5 kB] Get:20 https://deb.debian.org/debian sid/main Sources [11.5 MB] Get:21 https://deb.debian.org/debian experimental/non-free-firmware Sources [2,568 B] Get:22 https://deb.debian.org/debian experimental/main Sources [431 kB] Fetched 34.3 MB in 10s (3,470 kB/s) Reading package lists... 'https://deb.debian.org/debian/pool/main/c/cctbx/cctbx_2026.4%2bds2%2b%7e3.28.0%2bds1-2.dsc' cctbx_2026.4+ds2+~3.28.0+ds1-2.dsc 4152 SHA256:204a88481a117fe8c49d115a83025bda73f0480a198896cbfc536284ba14217b 'https://deb.debian.org/debian/pool/main/c/cctbx/cctbx_2026.4%2bds2%2b%7e3.28.0%2bds1.orig-dxtbx.tar.xz' cctbx_2026.4+ds2+~3.28.0+ds1.orig-dxtbx.tar.xz 389428 SHA256:4625660418c42cc98744fd97074c7c1f26439a999662b7fddf382e0cc4304940 'https://deb.debian.org/debian/pool/main/c/cctbx/cctbx_2026.4%2bds2%2b%7e3.28.0%2bds1.orig.tar.xz' cctbx_2026.4+ds2+~3.28.0+ds1.orig.tar.xz 104764504 SHA256:cd34f3a526d15c3dff4cc4d71eb422e4d1a7db6b6d7dd5a58bf77ac335accb63 'https://deb.debian.org/debian/pool/main/c/cctbx/cctbx_2026.4%2bds2%2b%7e3.28.0%2bds1-2.debian.tar.xz' cctbx_2026.4+ds2+~3.28.0+ds1-2.debian.tar.xz 420028 SHA256:b206ac624b799af58a32d092535caf017f89b784f29c2329af02ecd127d24a18 4625660418c42cc98744fd97074c7c1f26439a999662b7fddf382e0cc4304940 cctbx_2026.4+ds2+~3.28.0+ds1.orig-dxtbx.tar.xz cd34f3a526d15c3dff4cc4d71eb422e4d1a7db6b6d7dd5a58bf77ac335accb63 cctbx_2026.4+ds2+~3.28.0+ds1.orig.tar.xz b206ac624b799af58a32d092535caf017f89b784f29c2329af02ecd127d24a18 cctbx_2026.4+ds2+~3.28.0+ds1-2.debian.tar.xz 204a88481a117fe8c49d115a83025bda73f0480a198896cbfc536284ba14217b cctbx_2026.4+ds2+~3.28.0+ds1-2.dsc +------------------------------------------------------------------------------+ | Calling debrebuild Sat, 16 May 2026 13:02:32 +0000 | +------------------------------------------------------------------------------+ Rebuilding cctbx=2026.4+ds2+~3.28.0+ds1-2 in /srv/rebuilderd/tmp/rebuilderdRtDovd/inputs now. + nice /usr/bin/debrebuild --buildresult=/srv/rebuilderd/tmp/rebuilderdRtDovd/out --builder=sbuild+unshare --cache=/srv/rebuilderd/cache -- /srv/rebuilderd/tmp/rebuilderdRtDovd/inputs/cctbx_2026.4+ds2+~3.28.0+ds1-2_amd64.buildinfo /srv/rebuilderd/tmp/rebuilderdRtDovd/inputs/cctbx_2026.4+ds2+~3.28.0+ds1-2_amd64.buildinfo contains a GPG signature which has NOT been validated Using defined Build-Path: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 I: verifying dsc... successful! Get:1 http://deb.debian.org/debian unstable InRelease [189 kB] Get:2 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable InRelease [189 kB] Get:3 http://deb.debian.org/debian unstable/main amd64 Packages [10.4 MB] Get:4 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 Packages [10.4 MB] Fetched 21.2 MB in 2s (10.1 MB/s) Reading package lists... W: http://snapshot.debian.org/archive/debian/20260506T205057Z/dists/unstable/InRelease: Loading /etc/apt/trusted.gpg from deprecated option Dir::Etc::Trusted Get:1 http://deb.debian.org/debian unstable/main amd64 libglycin-2-0 amd64 2.0.8-1 [1423 kB] Fetched 1423 kB in 0s (92.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp2497rexd/libglycin-2-0_2.0.8-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 gcc-x86-64-linux-gnu amd64 4:15.2.0-5+b1 [1440 B] Fetched 1440 B in 0s (0 B/s) dpkg-name: info: moved 'gcc-x86-64-linux-gnu_4%3a15.2.0-5+b1_amd64.deb' to '/srv/rebuilderd/tmp/tmpbg8mcfpl/gcc-x86-64-linux-gnu_15.2.0-5+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libmpfr6 amd64 4.2.2-3 [729 kB] Fetched 729 kB in 0s (66.9 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp2ls36m15/libmpfr6_4.2.2-3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-flexcache all 0.3-3 [13.7 kB] Fetched 13.7 kB in 0s (437 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp64wg_0kv/python3-flexcache_0.3-3_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 tzdata all 2026b-1 [260 kB] Fetched 260 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp7xda7m98/tzdata_2026b-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 comerr-dev amd64 2.1-1.47.4-1 [50.9 kB] Fetched 50.9 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpzv4hluf5/comerr-dev_2.1-1.47.4-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libgcc-15-dev amd64 15.2.0-17 [2718 kB] Fetched 2718 kB in 0s (132 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmplro4jhcz/libgcc-15-dev_15.2.0-17_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libboost-graph1.90-dev amd64 1.90.0-6 [378 kB] Fetched 378 kB in 0s (5258 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpk_aqxk70/libboost-graph1.90-dev_1.90.0-6_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 architecture-properties amd64 0.2.6+b2 [2632 B] Fetched 2632 B in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp27b1aqf1/architecture-properties_0.2.6+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libsndfile1 amd64 1.2.2-4+b1 [205 kB] Fetched 205 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp3z_mhcud/libsndfile1_1.2.2-4+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libqt5core5t64 amd64 5.15.17+dfsg-8 [1893 kB] Fetched 1893 kB in 0s (9854 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpxk8d9ko5/libqt5core5t64_5.15.17+dfsg-8_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-setuptools all 78.1.1-0.1 [738 kB] Fetched 738 kB in 0s (61.8 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp12seqtkt/python3-setuptools_78.1.1-0.1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libboost-thread-dev amd64 1.90.0.2 [2880 B] Fetched 2880 B in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpvogm7_lk/libboost-thread-dev_1.90.0.2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-decorator all 5.2.1-2 [33.0 kB] Fetched 33.0 kB in 0s (1266 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpendg9p5z/python3-decorator_5.2.1-2_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 python3.14-tk amd64 3.14.5~rc1-1 [104 kB] Fetched 104 kB in 0s (1411 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp38b_899o/python3.14-tk_3.14.5~rc1-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 binutils-common amd64 2.46-3 [2632 kB] Fetched 2632 kB in 0s (130 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpe4xk8r27/binutils-common_2.46-3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libopus0 amd64 1.6.1-1+b1 [3484 kB] Fetched 3484 kB in 0s (147 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpok1v9fc5/libopus0_1.6.1-1+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-kiwisolver amd64 1.5.0-1 [72.4 kB] Fetched 72.4 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmphjhy4vhx/python3-kiwisolver_1.5.0-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 python-matplotlib-data all 3.10.7+dfsg1-3 [2733 kB] Fetched 2733 kB in 0s (38.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpfb38yboo/python-matplotlib-data_3.10.7+dfsg1-3_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libnuma1 amd64 2.0.19-1+b2 [22.0 kB] Fetched 22.0 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp4cwnyxt8/libnuma1_2.0.19-1+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxkbcommon0 amd64 1.13.1-1 [148 kB] Fetched 148 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp5j_t56y8/libxkbcommon0_1.13.1-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libtool all 2.5.4-11 [539 kB] Fetched 539 kB in 0s (53.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpk4gxnpnd/libtool_2.5.4-11_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 jq amd64 1.8.1-5 [85.0 kB] Fetched 85.0 kB in 0s (1430 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp25pqn8ue/jq_1.8.1-5_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libfabric1 amd64 2.1.0-1.1+b2 [716 kB] Fetched 716 kB in 0s (8673 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp78i3pk5_/libfabric1_2.1.0-1.1+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 adwaita-icon-theme all 50.0-1 [506 kB] Fetched 506 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpcg9pa7_u/adwaita-icon-theme_50.0-1_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libgfortran5 amd64 16-20260425-1 [884 kB] Fetched 884 kB in 0s (8000 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpqdl8hyqj/libgfortran5_16-20260425-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 glycin-thumbnailers amd64 2.0.8-1 [1053 kB] Fetched 1053 kB in 0s (78.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpj1c5nwev/glycin-thumbnailers_2.0.8-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libpython3.14-minimal amd64 3.14.5~rc1-1 [892 kB] Fetched 892 kB in 0s (72.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpoqvdm8uj/libpython3.14-minimal_3.14.5~rc1-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxxf86vm1 amd64 1:1.1.4-2+b1 [20.2 kB] Fetched 20.2 kB in 0s (0 B/s) dpkg-name: info: moved 'libxxf86vm1_1%3a1.1.4-2+b1_amd64.deb' to '/srv/rebuilderd/tmp/tmptuu18m1v/libxxf86vm1_1.1.4-2+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libboost-python-dev amd64 1.90.0.2 [3160 B] Fetched 3160 B in 0s (68.5 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpp_h57hko/libboost-python-dev_1.90.0.2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libmagic-mgc amd64 1:5.46-5+b2 [337 kB] Fetched 337 kB in 0s (0 B/s) dpkg-name: info: moved 'libmagic-mgc_1%3a5.46-5+b2_amd64.deb' to '/srv/rebuilderd/tmp/tmps0520asg/libmagic-mgc_5.46-5+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-wxgtk4.0 amd64 4.2.4+dfsg-1 [10.1 MB] Fetched 10.1 MB in 0s (51.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpkic5bdcu/python3-wxgtk4.0_4.2.4+dfsg-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libwxbase3.2-1t64 amd64 3.2.9+dfsg-1+b1 [1074 kB] Fetched 1074 kB in 0s (10.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp2r293ag0/libwxbase3.2-1t64_3.2.9+dfsg-1+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-pil.imagetk amd64 12.2.0-1 [83.4 kB] Fetched 83.4 kB in 0s (2058 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpd9kruj0z/python3-pil.imagetk_12.2.0-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libapparmor1 amd64 4.1.7-2 [36.2 kB] Fetched 36.2 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp60i__lif/libapparmor1_4.1.7-2_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libtcl8.6 amd64 8.6.17+dfsg-1+b2 [1053 kB] Fetched 1053 kB in 0s (13.8 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpu0nd8dr3/libtcl8.6_8.6.17+dfsg-1+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 dbus-user-session amd64 1.16.2-4 [53.0 kB] Fetched 53.0 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp4aav9lho/dbus-user-session_1.16.2-4_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libantlr3c-dev amd64 3.4+dfsg-4+b3 [132 kB] Fetched 132 kB in 0s (2986 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmps4xo8vim/libantlr3c-dev_3.4+dfsg-4+b3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 sfftw-dev amd64 2.1.5-8 [295 kB] Fetched 295 kB in 0s (5321 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpr2b_89ol/sfftw-dev_2.1.5-8_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libcairo2 amd64 1.18.4-3+b1 [543 kB] Fetched 543 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpvjw25lp5/libcairo2_1.18.4-3+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libfuse3-4 amd64 3.18.2-2 [103 kB] Fetched 103 kB in 0s (3716 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_iyf8ggl/libfuse3-4_3.18.2-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-zipp all 3.23.0-1 [11.0 kB] Fetched 11.0 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp0e1odr9r/python3-zipp_3.23.0-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libhwloc15 amd64 2.13.0-2 [165 kB] Fetched 165 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_8d_zgic/libhwloc15_2.13.0-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libhdf5-fortran-310 amd64 1.14.6+repack-2+b1 [107 kB] Fetched 107 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpolr10lr1/libhdf5-fortran-310_1.14.6+repack-2+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libsdl3-0 amd64 3.4.8+ds-1 [1058 kB] Fetched 1058 kB in 0s (86.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp35kai_5z/libsdl3-0_3.4.8+ds-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libz3-4 amd64 4.13.3-1+b2 [8644 kB] Fetched 8644 kB in 0s (180 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp4dsr2nqi/libz3-4_4.13.3-1+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 binutils amd64 2.46-3 [282 kB] Fetched 282 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpr2lrz2l0/binutils_2.46-3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libjbig-dev amd64 2.1-6.1+b3 [31.4 kB] Fetched 31.4 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp8vgcdicw/libjbig-dev_2.1-6.1+b3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libthai-data all 0.1.30-1 [172 kB] Fetched 172 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpoifqp7aa/libthai-data_0.1.30-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-nxmx all 0.0.7-1 [16.7 kB] Fetched 16.7 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpids6gpkh/python3-nxmx_0.0.7-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libfftw3-double3 amd64 3.3.10-2+b2 [775 kB] Fetched 775 kB in 0s (12.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmplhsuetv1/libfftw3-double3_3.3.10-2+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libsm6 amd64 2:1.2.6-1+b2 [37.9 kB] Fetched 37.9 kB in 0s (0 B/s) dpkg-name: info: moved 'libsm6_2%3a1.2.6-1+b2_amd64.deb' to '/srv/rebuilderd/tmp/tmp1b1klloe/libsm6_1.2.6-1+b2_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libk5crypto3 amd64 1.22.1-2+b1 [78.9 kB] Fetched 78.9 kB in 0s (2595 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpkn2t_323/libk5crypto3_1.22.1-2+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 hicolor-icon-theme all 0.18-2 [11.8 kB] Fetched 11.8 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpd4bclrhl/hicolor-icon-theme_0.18-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-psutil amd64 7.1.0-1 [224 kB] Fetched 224 kB in 0s (11.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_bj66f85/python3-psutil_7.1.0-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libperl5.40 amd64 5.40.1-7+b1 [4319 kB] Fetched 4319 kB in 0s (141 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmput8njqlc/libperl5.40_5.40.1-7+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 ncurses-bin amd64 6.6+20251231-1+b1 [442 kB] Fetched 442 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpcic1s_6m/ncurses-bin_6.6+20251231-1+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libhsa-runtime64-1 amd64 6.4.3+dfsg-5 [678 kB] Fetched 678 kB in 0s (62.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_wva6lqg/libhsa-runtime64-1_6.4.3+dfsg-5_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 pybind11-dev all 3.0.1-3 [240 kB] Fetched 240 kB in 0s (3655 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpa1yei96t/pybind11-dev_3.0.1-3_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libx11-dev amd64 2:1.8.13-1 [903 kB] Fetched 903 kB in 0s (78.6 MB/s) dpkg-name: info: moved 'libx11-dev_2%3a1.8.13-1_amd64.deb' to '/srv/rebuilderd/tmp/tmp20_9_p9g/libx11-dev_1.8.13-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-minimal amd64 3.13.9-3+b1 [25.4 kB] Fetched 25.4 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp12m192vj/python3-minimal_3.13.9-3+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-dateutil all 2.9.0-4 [79.4 kB] Fetched 79.4 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpbgepcw99/python3-dateutil_2.9.0-4_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-inflect all 7.5.0-1 [33.0 kB] Fetched 33.0 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpc5l2de4s/python3-inflect_7.5.0-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 build-essential amd64 12.12 [4624 B] Fetched 4624 B in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpz3c915x_/build-essential_12.12_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libffi8 amd64 3.5.2-4 [25.2 kB] Fetched 25.2 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp7dzvmrth/libffi8_3.5.2-4_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 coreutils amd64 9.10-1 [3142 kB] Fetched 3142 kB in 0s (96.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpmugyn2m8/coreutils_9.10-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libfftw3-single3 amd64 3.3.10-2+b2 [805 kB] Fetched 805 kB in 0s (71.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpmwcdrrjh/libfftw3-single3_3.3.10-2+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libpam-modules-bin amd64 1.7.0-5+b2 [45.6 kB] Fetched 45.6 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpl1iqbwbx/libpam-modules-bin_1.7.0-5+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 librdmacm1t64 amd64 63.0-1 [71.7 kB] Fetched 71.7 kB in 0s (1562 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpm5vf7mkc/librdmacm1t64_63.0-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libccp4-dev amd64 8.0.0-5+b1 [42.7 kB] Fetched 42.7 kB in 0s (1943 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp8njotp0o/libccp4-dev_8.0.0-5+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libgudev-1.0-0 amd64 238-7+b2 [14.4 kB] Fetched 14.4 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpdn2cuxdv/libgudev-1.0-0_238-7+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 pymol-data all 3.1.0+dfsg-1 [1430 kB] Fetched 1430 kB in 0s (7401 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpggskl4se/pymol-data_3.1.0+dfsg-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-pytest all 9.0.3-1 [273 kB] Fetched 273 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp1fqbcs_s/python3-pytest_9.0.3-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-lxml amd64 6.1.0-1 [2232 kB] Fetched 2232 kB in 0s (124 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpq8gn53xx/python3-lxml_6.1.0-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libpython3.13 amd64 3.13.12-1 [2187 kB] Fetched 2187 kB in 0s (124 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpj4hm61ts/libpython3.13_3.13.12-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-pycbf amd64 0.9.7+dfsg1-5.1+b1 [202 kB] Fetched 202 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpsez5vxgf/python3-pycbf_0.9.7+dfsg1-5.1+b1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libidn2-0 amd64 2.3.8-4+b2 [109 kB] Fetched 109 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpe90c2wxh/libidn2-0_2.3.8-4+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libtiffxx6 amd64 4.7.1-2 [171 kB] Fetched 171 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpecd_a0ry/libtiffxx6_4.7.1-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libgmpxx4ldbl amd64 2:6.3.0+dfsg-5+b2 [328 kB] Fetched 328 kB in 0s (0 B/s) dpkg-name: info: moved 'libgmpxx4ldbl_2%3a6.3.0+dfsg-5+b2_amd64.deb' to '/srv/rebuilderd/tmp/tmp_czheg6d/libgmpxx4ldbl_6.3.0+dfsg-5+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxcb-dri3-0 amd64 1.17.0-2+b2 [107 kB] Fetched 107 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpsr8dpec0/libxcb-dri3-0_1.17.0-2+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libamdhip64-6 amd64 6.4.3-5 [9385 kB] Fetched 9385 kB in 0s (19.9 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpl93ucgy_/libamdhip64-6_6.4.3-5_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 mount amd64 2.42-6 [163 kB] Fetched 163 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpzxlse8t4/mount_2.42-6_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-natsort all 8.4.0-2 [39.0 kB] Fetched 39.0 kB in 0s (1817 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp8mc1dif3/python3-natsort_8.4.0-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libboost-container1.90.0 amd64 1.90.0-6 [252 kB] Fetched 252 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpshrtl310/libboost-container1.90.0_1.90.0-6_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libblas3 amd64 3.12.1-7+b2 [206 kB] Fetched 206 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp7ks_gax_/libblas3_3.12.1-7+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 systemd-sysv amd64 260.1-1 [37.4 kB] Fetched 37.4 kB in 0s (285 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpgrf8v97b/systemd-sysv_260.1-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxext6 amd64 2:1.3.4-1+b4 [50.7 kB] Fetched 50.7 kB in 0s (0 B/s) dpkg-name: info: moved 'libxext6_2%3a1.3.4-1+b4_amd64.deb' to '/srv/rebuilderd/tmp/tmpz3pebyry/libxext6_1.3.4-1+b4_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxft2 amd64 2.3.6-1+b5 [54.8 kB] Fetched 54.8 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpp1ulq5vs/libxft2_2.3.6-1+b5_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 sensible-utils all 0.0.26 [27.0 kB] Fetched 27.0 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpohsez3l3/sensible-utils_0.0.26_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libssl3t64 amd64 3.6.2-1 [2482 kB] Fetched 2482 kB in 0s (129 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp6tfrn7uq/libssl3t64_3.6.2-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libpipeline1 amd64 1.5.8-3 [49.2 kB] Fetched 49.2 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpsqaszavs/libpipeline1_1.5.8-3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libpcre2-8-0 amd64 10.46-1+b2 [297 kB] Fetched 297 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp06bbv6vl/libpcre2-8-0_10.46-1+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libaudit-common all 1:4.1.2-1 [14.3 kB] Fetched 14.3 kB in 0s (0 B/s) dpkg-name: info: moved 'libaudit-common_1%3a4.1.2-1_all.deb' to '/srv/rebuilderd/tmp/tmpvqsi4ljq/libaudit-common_4.1.2-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxcb-shm0 amd64 1.17.0-2+b2 [105 kB] Fetched 105 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmphfy4bskw/libxcb-shm0_1.17.0-2+b2_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 python3-h5py all 3.16.0-2 [14.6 kB] Fetched 14.6 kB in 0s (541 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpelg4bm7k/python3-h5py_3.16.0-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 dconf-service amd64 0.49.0-4+b1 [32.6 kB] Fetched 32.6 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp8kp217au/dconf-service_0.49.0-4+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libsz2 amd64 1.1.6-1 [18.8 kB] Fetched 18.8 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpmqc2ciwd/libsz2_1.1.6-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 dbus-daemon amd64 1.16.2-4 [160 kB] Fetched 160 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpbuj0onr6/dbus-daemon_1.16.2-4_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libraqm0 amd64 0.10.5-1 [13.6 kB] Fetched 13.6 kB in 0s (555 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpjyd8923k/libraqm0_0.10.5-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libinput-bin amd64 1.31.1-1 [27.3 kB] Fetched 27.3 kB in 0s (2607 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpv2k8u2gn/libinput-bin_1.31.1-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-jaraco.context all 6.0.1-2 [8184 B] Fetched 8184 B in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpc6j7v9tf/python3-jaraco.context_6.0.1-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 sysvinit-utils amd64 3.18-1 [29.7 kB] Fetched 29.7 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmppxcgvlbn/sysvinit-utils_3.18-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libgraphite2-3 amd64 1.3.14-13 [75.9 kB] Fetched 75.9 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpxno1_5qe/libgraphite2-3_1.3.14-13_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 dh-exec amd64 0.31 [26.1 kB] Fetched 26.1 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmplrt25phd/dh-exec_0.31_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 dh-strip-nondeterminism all 1.15.0-1 [8812 B] Fetched 8812 B in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_iinjev8/dh-strip-nondeterminism_1.15.0-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libonig5 amd64 6.9.10-1+b1 [192 kB] Fetched 192 kB in 0s (4061 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpcj925w6v/libonig5_6.9.10-1+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-msgpack amd64 1.1.2-2 [107 kB] Fetched 107 kB in 0s (5420 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmppl8fsbpg/python3-msgpack_1.1.2-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 dbus-system-bus-common all 1.16.2-4 [54.1 kB] Fetched 54.1 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpshjrxo4i/dbus-system-bus-common_1.16.2-4_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libboost-python1.90.0 amd64 1.90.0-6 [345 kB] Fetched 345 kB in 0s (9365 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpna3pyhu5/libboost-python1.90.0_1.90.0-6_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libegl1 amd64 1.7.0-3+b1 [35.0 kB] Fetched 35.0 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpqzfdp7nc/libegl1_1.7.0-3+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libllvm21 amd64 1:21.1.8-7+b1 [28.2 MB] Fetched 28.2 MB in 0s (188 MB/s) dpkg-name: info: moved 'libllvm21_1%3a21.1.8-7+b1_amd64.deb' to '/srv/rebuilderd/tmp/tmp6jhva54_/libllvm21_21.1.8-7+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libtasn1-6 amd64 4.21.0-2+b1 [49.3 kB] Fetched 49.3 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmphzph0pan/libtasn1-6_4.21.0-2+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libjs-jquery all 3.7.1+dfsg+~3.5.33-1 [319 kB] Fetched 319 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp1o9a2s5h/libjs-jquery_3.7.1+dfsg+~3.5.33-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-tk amd64 3.13.9-3+b1 [8640 B] Fetched 8640 B in 0s (431 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpk6u2gw5u/python3-tk_3.13.9-3+b1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 python3.14-dev amd64 3.14.5~rc1-1 [507 kB] Fetched 507 kB in 0s (9006 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpclevd_3m/python3.14-dev_3.14.5~rc1-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libmtdev1t64 amd64 1.1.7-1+b2 [23.2 kB] Fetched 23.2 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp0hhtgr98/libmtdev1t64_1.1.7-1+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libhogweed6t64 amd64 3.10.2-1+b1 [335 kB] Fetched 335 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpsi8vd5nz/libhogweed6t64_3.10.2-1+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libqt5dbus5t64 amd64 5.15.17+dfsg-8 [211 kB] Fetched 211 kB in 0s (5399 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpwbb44_yo/libqt5dbus5t64_5.15.17+dfsg-8_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libc6-dev amd64 2.42-15 [1994 kB] Fetched 1994 kB in 0s (108 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpliprmmrv/libc6-dev_2.42-15_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 ocl-icd-libopencl1 amd64 2.3.4-1+b1 [42.8 kB] Fetched 42.8 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp1d4dev9p/ocl-icd-libopencl1_2.3.4-1+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 dh-autoreconf all 22 [12.2 kB] Fetched 12.2 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmphs37qmca/dh-autoreconf_22_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libmpc3 amd64 1.3.1-3 [52.2 kB] Fetched 52.2 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpruruozdb/libmpc3_1.3.1-3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libcrypt1 amd64 1:4.5.1-1+b1 [96.4 kB] Fetched 96.4 kB in 0s (0 B/s) dpkg-name: info: moved 'libcrypt1_1%3a4.5.1-1+b1_amd64.deb' to '/srv/rebuilderd/tmp/tmp19hmgfun/libcrypt1_4.5.1-1+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 fonts-dejavu-mono all 2.37-9 [488 kB] Fetched 488 kB in 0s (46.9 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp3t5xxal5/fonts-dejavu-mono_2.37-9_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libmpg123-0t64 amd64 1.33.5-1 [154 kB] Fetched 154 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmppo53a1rm/libmpg123-0t64_1.33.5-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 hdf5-helpers amd64 1.14.6+repack-2+b1 [20.6 kB] Fetched 20.6 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpwm_p6zd4/hdf5-helpers_1.14.6+repack-2+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libp11-kit0 amd64 0.26.2-2 [470 kB] Fetched 470 kB in 0s (45.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpi1nfpmsl/libp11-kit0_0.26.2-2_amd64.deb' Downloading dependency 1 of 688: libglycin-2-0:amd64=2.0.8-1 Downloading dependency 2 of 688: gcc-x86-64-linux-gnu:amd64=4:15.2.0-5+b1 Downloading dependency 3 of 688: libmpfr6:amd64=4.2.2-3 Downloading dependency 4 of 688: python3-flexcache:amd64=0.3-3 Downloading dependency 5 of 688: tzdata:amd64=2026b-1 Downloading dependency 6 of 688: comerr-dev:amd64=2.1-1.47.4-1 Downloading dependency 7 of 688: libgcc-15-dev:amd64=15.2.0-17 Downloading dependency 8 of 688: libboost-graph1.90-dev:amd64=1.90.0-6 Downloading dependency 9 of 688: architecture-properties:amd64=0.2.6+b2 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libgudev-1.0-0:amd64=238-7+b2 Downloading dependency 72 of 688: pymol-data:amd64=3.1.0+dfsg-1 Downloading dependency 73 of 688: python3-pytest:amd64=9.0.3-1 Downloading dependency 74 of 688: python3-lxml:amd64=6.1.0-1 Downloading dependency 75 of 688: libpython3.13:amd64=3.13.12-1 Downloading dependency 76 of 688: python3-pycbf:amd64=0.9.7+dfsg1-5.1+b1 Downloading dependency 77 of 688: libidn2-0:amd64=2.3.8-4+b2 Downloading dependency 78 of 688: libtiffxx6:amd64=4.7.1-2 Downloading dependency 79 of 688: libgmpxx4ldbl:amd64=2:6.3.0+dfsg-5+b2 Downloading dependency 80 of 688: libxcb-dri3-0:amd64=1.17.0-2+b2 Downloading dependency 81 of 688: libamdhip64-6:amd64=6.4.3-5 Downloading dependency 82 of 688: mount:amd64=2.42-6 Downloading dependency 83 of 688: python3-natsort:amd64=8.4.0-2 Downloading dependency 84 of 688: libboost-container1.90.0:amd64=1.90.0-6 Downloading dependency 85 of 688: libblas3:amd64=3.12.1-7+b2 Downloading dependency 86 of 688: systemd-sysv:amd64=260.1-1 Downloading 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dependency 103 of 688: libgraphite2-3:amd64=1.3.14-13 Downloading dependency 104 of 688: dh-exec:amd64=0.31 Downloading dependency 105 of 688: dh-strip-nondeterminism:amd64=1.15.0-1 Downloading dependency 106 of 688: libonig5:amd64=6.9.10-1+b1 Downloading dependency 107 of 688: python3-msgpack:amd64=1.1.2-2 Downloading dependency 108 of 688: dbus-system-bus-common:amd64=1.16.2-4 Downloading dependency 109 of 688: libboost-python1.90.0:amd64=1.90.0-6 Downloading dependency 110 of 688: libegl1:amd64=1.7.0-3+b1 Downloading dependency 111 of 688: libllvm21:amd64=1:21.1.8-7+b1 Downloading dependency 112 of 688: libtasn1-6:amd64=4.21.0-2+b1 Downloading dependency 113 of 688: libjs-jquery:amd64=3.7.1+dfsg+~3.5.33-1 Downloading dependency 114 of 688: python3-tk:amd64=3.13.9-3+b1 Downloading dependency 115 of 688: python3.14-dev:amd64=3.14.5~rc1-1 Downloading dependency 116 of 688: libmtdev1t64:amd64=1.1.7-1+b2 Downloading dependency 117 of 688: libhogweed6t64:amd64=3.10.2-1+b1 Downloading dependency 118 of 688: libqt5dbus5t64:amd64=5.15.17+dfsg-8 Downloading dependency 119 of 688: libc6-dev:amd64=2.42-15 Downloading dependency 120 of 688: ocl-icd-libopencl1:amd64=2.3.4-1+b1 Downloading dependency 121 of 688: dh-autoreconf:amd64=22 Downloading dependency 122 of 688: libmpc3:amd64=1.3.1-3 Downloading dependency 123 of 688: libcrypt1:amd64=1:4.5.1-1+b1 Downloading dependency 124 of 688: fonts-dejavu-mono:amd64=2.37-9 Downloading dependency 125 of 688: libmpg123-0t64:amd64=1.33.5-1 Downloading dependency 126 of 688: hdf5-helpers:amd64=1.14.6+repack-2+b1 Downloading dependency 127 of 688: libp11-kit0:amd64=0.26.2-2 Downloading dependency 128 of 688: fonts-lyx:amd64=2.5.1-1Get:1 http://deb.debian.org/debian unstable/main amd64 fonts-lyx all 2.5.1-1 [190 kB] Fetched 190 kB in 0s (981 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpu42_h_tg/fonts-lyx_2.5.1-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libgl1 amd64 1.7.0-3+b1 [87.1 kB] Fetched 87.1 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpd8pk6wie/libgl1_1.7.0-3+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libann-cctbx0 amd64 1.1.2+doc-9+b1 [32.4 kB] Fetched 32.4 kB in 0s (617 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpdbjqseuc/libann-cctbx0_1.1.2+doc-9+b1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 python3-h5py-serial amd64 3.16.0-2 [1521 kB] Fetched 1521 kB in 0s (106 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpzbwp1whk/python3-h5py-serial_3.16.0-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libgdk-pixbuf-2.0-0 amd64 2.44.6+dfsg-2 [96.1 kB] Fetched 96.1 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmprymolk4u/libgdk-pixbuf-2.0-0_2.44.6+dfsg-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 dpkg amd64 1.23.7 [1531 kB] Fetched 1531 kB in 0s (104 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpiu_fhti_/dpkg_1.23.7_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 pybuild-plugin-pyproject all 7.20260309 [6752 B] Fetched 6752 B in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp0hei1mbf/pybuild-plugin-pyproject_7.20260309_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libexpat1 amd64 2.8.0-1 [116 kB] Fetched 116 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpg50_jlky/libexpat1_2.8.0-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 autopoint all 0.23.2-2 [770 kB] Fetched 770 kB in 0s (67.9 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp694ml7zp/autopoint_0.23.2-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libqt5network5t64 amd64 5.15.17+dfsg-8 [683 kB] Fetched 683 kB in 0s (7362 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmplhvhvas2/libqt5network5t64_5.15.17+dfsg-8_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxcb-util1 amd64 0.4.1-1+b2 [23.8 kB] Fetched 23.8 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpnw51nvny/libxcb-util1_0.4.1-1+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libboost-numpy1.90.0 amd64 1.90.0-6 [238 kB] Fetched 238 kB in 0s (3871 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpep0d31xr/libboost-numpy1.90.0_1.90.0-6_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libmmdb2-0 amd64 2.0.22-1+b3 [346 kB] Fetched 346 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp__06h3tx/libmmdb2-0_2.0.22-1+b3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libtasn1-6-dev amd64 4.21.0-2+b1 [98.6 kB] Fetched 98.6 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmplbvobl5j/libtasn1-6-dev_4.21.0-2+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 dbus amd64 1.16.2-4 [72.4 kB] Fetched 72.4 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpgnsv2gpp/dbus_1.16.2-4_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 fftw2 amd64 2.1.5-8 [251 kB] Fetched 251 kB in 0s (2218 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpd5m81nt0/fftw2_2.1.5-8_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libqt5printsupport5t64 amd64 5.15.17+dfsg-8 [200 kB] Fetched 200 kB in 0s (3746 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpyppyrm4w/libqt5printsupport5t64_5.15.17+dfsg-8_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libwayland-client0 amd64 1.24.0-2+b2 [28.8 kB] Fetched 28.8 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmplv1qwmfv/libwayland-client0_1.24.0-2+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 gettext amd64 0.23.2-2 [1684 kB] Fetched 1684 kB in 0s (108 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpxku4ull6/gettext_0.23.2-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libsystemd-shared amd64 260.1-1 [2398 kB] Fetched 2398 kB in 0s (119 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp0tqber3c/libsystemd-shared_260.1-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libharfbuzz0b amd64 12.3.2-2+b2 [513 kB] Fetched 513 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpln3omb7w/libharfbuzz0b_12.3.2-2+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libthai0 amd64 0.1.30-1+b1 [52.1 kB] Fetched 52.1 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpc00x703_/libthai0_0.1.30-1+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-jaraco.functools all 4.1.0-1 [12.0 kB] Fetched 12.0 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpfw0j0qv8/python3-jaraco.functools_4.1.0-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 mawk amd64 1.3.4.20260302-1 [142 kB] Fetched 142 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp8t7m2tx2/mawk_1.3.4.20260302-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxshmfence1 amd64 1.3.3-1+b2 [11.2 kB] Fetched 11.2 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpu0o1bkek/libxshmfence1_1.3.3-1+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libvorbis0a amd64 1.3.7-3+b2 [93.2 kB] Fetched 93.2 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmptoc86fap/libvorbis0a_1.3.7-3+b2_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libkdb5-10t64 amd64 1.22.1-2+b1 [41.2 kB] Fetched 41.2 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp0i1g4kw9/libkdb5-10t64_1.22.1-2+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libproc2-0 amd64 2:4.0.4-9+b2 [63.8 kB] Fetched 63.8 kB in 0s (6136 kB/s) dpkg-name: info: moved 'libproc2-0_2%3a4.0.4-9+b2_amd64.deb' to '/srv/rebuilderd/tmp/tmp740kwzii/libproc2-0_4.0.4-9+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libboost1.90-dev amd64 1.90.0-6 [11.3 MB] Fetched 11.3 MB in 0s (176 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpke2sy3f2/libboost1.90-dev_1.90.0-6_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 unicode-data all 17.0.0-2 [9354 kB] Fetched 9354 kB in 0s (25.8 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpkf2srk9_/unicode-data_17.0.0-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libsmartcols1 amd64 2.42-6 [144 kB] Fetched 144 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpjdqvmiat/libsmartcols1_2.42-6_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libpmix2t64 amd64 6.0.0+really5.0.9-3+b1 [670 kB] Fetched 670 kB in 0s (5092 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpad2j0rwl/libpmix2t64_6.0.0+really5.0.9-3+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libdebhelper-perl all 13.31 [75.7 kB] Fetched 75.7 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpt_heni_q/libdebhelper-perl_13.31_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libccp4c0t64 amd64 8.0.0-5+b1 [90.4 kB] Fetched 90.4 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp37a687vr/libccp4c0t64_8.0.0-5+b1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 linux-libc-dev all 7.0.3-1 [1952 kB] Fetched 1952 kB in 0s (110 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpjclbt2nv/linux-libc-dev_7.0.3-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxcb-xkb1 amd64 1.17.0-2+b2 [130 kB] Fetched 130 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmple4p3n76/libxcb-xkb1_1.17.0-2+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 fonts-dejavu-extra all 2.37-9 [1791 kB] Fetched 1791 kB in 0s (97.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpr28kczfl/fonts-dejavu-extra_2.37-9_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-urllib3 all 2.6.3-2 [118 kB] Fetched 118 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp8cinq9c9/python3-urllib3_2.6.3-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 patch amd64 2.8-2 [134 kB] Fetched 134 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpf58koprd/patch_2.8-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libdbus-1-3 amd64 1.16.2-4 [180 kB] Fetched 180 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp0xvtd9wk/libdbus-1-3_1.16.2-4_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 liblerc4 amd64 4.1.0+ds-1 [199 kB] Fetched 199 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpd10e7gkg/liblerc4_4.1.0+ds-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-typeguard all 4.4.4-2 [37.2 kB] Fetched 37.2 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp5msx2m95/python3-typeguard_4.4.4-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-pint all 0.25.3-1 [231 kB] Fetched 231 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpxu_r8sr4/python3-pint_0.25.3-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libpam-modules amd64 1.7.0-5+b2 [175 kB] Fetched 175 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpjxmny5li/libpam-modules_1.7.0-5+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libglx0 amd64 1.7.0-3+b1 [34.9 kB] Fetched 34.9 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmppsw6kxlj/libglx0_1.7.0-3+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libkeyutils1 amd64 1.6.3-6+b2 [9348 B] Fetched 9348 B in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp81p5aibl/libkeyutils1_1.6.3-6+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libevent-core-2.1-7t64 amd64 2.1.12-stable-10+b2 [134 kB] Fetched 134 kB in 0s (2598 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpvwxdc3n2/libevent-core-2.1-7t64_2.1.12-stable-10+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 dpkg-dev all 1.23.7 [1318 kB] Fetched 1318 kB in 0s (90.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpary2y0o3/dpkg-dev_1.23.7_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 librav1e0.8 amd64 0.8.1-10 [973 kB] Fetched 973 kB in 0s (78.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp3ew5_ne5/librav1e0.8_0.8.1-10_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-build all 1.4.0-1 [38.8 kB] Fetched 38.8 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp9ypd1phr/python3-build_1.4.0-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libwebp7 amd64 1.5.0-0.1+b2 [335 kB] Fetched 335 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpgrq44gh9/libwebp7_1.5.0-0.1+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libccp4f0t64 amd64 8.0.0-5+b1 [208 kB] Fetched 208 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmph5gj3uj9/libccp4f0t64_8.0.0-5+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libboost-container1.90-dev amd64 1.90.0-6 [257 kB] Fetched 257 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp5ww1ns9e/libboost-container1.90-dev_1.90.0-6_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libselinux1 amd64 3.10-1 [85.4 kB] Fetched 85.4 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpigzj2fq_/libselinux1_3.10-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libp11-kit-dev amd64 0.26.2-2 [223 kB] Fetched 223 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp72qzhf86/libp11-kit-dev_0.26.2-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libnetcdf22 amd64 1:4.10.0-1 [526 kB] Fetched 526 kB in 0s (0 B/s) dpkg-name: info: moved 'libnetcdf22_1%3a4.10.0-1_amd64.deb' to '/srv/rebuilderd/tmp/tmp6izj1w7_/libnetcdf22_4.10.0-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 perl-base amd64 5.40.1-7+b1 [1676 kB] Fetched 1676 kB in 0s (111 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmppm5jxwxk/perl-base_5.40.1-7+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libfftw3-quad3 amd64 3.3.10-2+b2 [603 kB] Fetched 603 kB in 0s (26.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpdbbka33w/libfftw3-quad3_3.3.10-2+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libhdf5-hl-fortran-310 amd64 1.14.6+repack-2+b1 [38.1 kB] Fetched 38.1 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpkj2nqpmu/libhdf5-hl-fortran-310_1.14.6+repack-2+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libncursesw6 amd64 6.6+20251231-1+b1 [136 kB] Fetched 136 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpxx905pzj/libncursesw6_6.6+20251231-1+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxcb-xfixes0 amd64 1.17.0-2+b2 [109 kB] Fetched 109 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpmen0f_21/libxcb-xfixes0_1.17.0-2+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libcbf-dev amd64 0.9.7+dfsg1-5.1+b1 [458 kB] Fetched 458 kB in 0s (6576 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpkg5wqwr6/libcbf-dev_0.9.7+dfsg1-5.1+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libavahi-common3 amd64 0.8-18 [45.2 kB] Fetched 45.2 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpyolo83qv/libavahi-common3_0.8-18_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libboost-test1.90-dev amd64 1.90.0-6 [533 kB] Fetched 533 kB in 0s (9033 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmps2uiw0_e/libboost-test1.90-dev_1.90.0-6_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libpangoft2-1.0-0 amd64 1.57.1-2 [52.8 kB] Fetched 52.8 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpb2j2f2ep/libpangoft2-1.0-0_1.57.1-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-wheel all 0.47.0-1 [26.9 kB] Fetched 26.9 kB in 0s (1300 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp3in_8dv2/python3-wheel_0.47.0-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-jaraco.text all 4.0.0-1 [11.4 kB] Fetched 11.4 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_6zd4ppc/python3-jaraco.text_4.0.0-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 ibverbs-providers amd64 63.0-1 [383 kB] Fetched 383 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpcjipk_fl/ibverbs-providers_63.0-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libboost-numpy-dev amd64 1.90.0.2 [2900 B] Fetched 2900 B in 0s (214 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp10ice9mw/libboost-numpy-dev_1.90.0.2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-scipy amd64 1.16.3-4 [18.6 MB] Fetched 18.6 MB in 0s (189 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpa3ml24b9/python3-scipy_1.16.3-4_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libpsm2-2 amd64 11.2.185-2.1 [181 kB] Fetched 181 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpsd3x1wbk/libpsm2-2_11.2.185-2.1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-fonttools amd64 4.62.1-7 [1682 kB] Fetched 1682 kB in 0s (8023 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpl0etbj26/python3-fonttools_4.62.1-7_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 sfftw2 amd64 2.1.5-8 [255 kB] Fetched 255 kB in 0s (4764 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmphf_vhl8v/sfftw2_2.1.5-8_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libvulkan1 amd64 1.4.341.0-1 [141 kB] Fetched 141 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpm3bhsf1i/libvulkan1_1.4.341.0-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 base-files amd64 14 [72.9 kB] Fetched 72.9 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpt3eaoszf/base-files_14_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 debianutils amd64 5.23.2 [92.4 kB] Fetched 92.4 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp7ihq3g4j/debianutils_5.23.2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libqt5sql5t64 amd64 5.15.17+dfsg-8 [119 kB] Fetched 119 kB in 0s (4500 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp01q5ss7t/libqt5sql5t64_5.15.17+dfsg-8_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 liblzma-dev amd64 5.8.3-1 [369 kB] Fetched 369 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmplocwrkun/liblzma-dev_5.8.3-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 xkb-data all 2.47-1 [835 kB] Fetched 835 kB in 0s (74.9 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpsurg3k7b/xkb-data_2.47-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libmmdb2-dev amd64 2.0.22-1+b3 [92.9 kB] Fetched 92.9 kB in 0s (2985 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmprud59cdk/libmmdb2-dev_2.0.22-1+b3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libx11-6 amd64 2:1.8.13-1 [829 kB] Fetched 829 kB in 0s (72.3 MB/s) dpkg-name: info: moved 'libx11-6_2%3a1.8.13-1_amd64.deb' to '/srv/rebuilderd/tmp/tmpqpi3b1zj/libx11-6_1.8.13-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 util-linux amd64 2.42-6 [1220 kB] Fetched 1220 kB in 0s (91.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpjuhhy4zh/util-linux_2.42-6_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 liblsan0 amd64 16-20260425-1 [1280 kB] Fetched 1280 kB in 0s (92.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp3wuzpkbm/liblsan0_16-20260425-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxcb-keysyms1 amd64 0.4.1-1+b2 [17.0 kB] Fetched 17.0 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpka871im1/libxcb-keysyms1_0.4.1-1+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libclipper2 amd64 2.1.20201109-2+b4 [1178 kB] Fetched 1178 kB in 0s (12.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpukspg7q2/libclipper2_2.1.20201109-2+b4_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libkadm5srv-mit12 amd64 1.22.1-2+b1 [54.0 kB] Fetched 54.0 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpyifa1hb3/libkadm5srv-mit12_1.22.1-2+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxi6 amd64 2:1.8.2-2+b1 [79.9 kB] Fetched 79.9 kB in 0s (0 B/s) dpkg-name: info: moved 'libxi6_2%3a1.8.2-2+b1_amd64.deb' to '/srv/rebuilderd/tmp/tmp2osb4zql/libxi6_1.8.2-2+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libhdf5-hl-cpp-310 amd64 1.14.6+repack-2+b1 [18.5 kB] Fetched 18.5 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpxjalkx3k/libhdf5-hl-cpp-310_1.14.6+repack-2+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libblkid1 amd64 2.42-6 [172 kB] Fetched 172 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp15ajpb56/libblkid1_2.42-6_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 dconf-gsettings-backend amd64 0.49.0-4+b1 [28.7 kB] Fetched 28.7 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpoadrwl_x/dconf-gsettings-backend_0.49.0-4+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 groff-base amd64 1.24.1-1 [1336 kB] Fetched 1336 kB in 0s (98.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp6dowp8_w/groff-base_1.24.1-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-hdf5plugin all 5.1.0-1 [27.1 kB] Fetched 27.1 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp17z_9_2x/python3-hdf5plugin_5.1.0-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-freetype all 2.5.1-2 [89.4 kB] Fetched 89.4 kB in 0s (492 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpmyn8k0h4/python3-freetype_2.5.1-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libgl-dev amd64 1.7.0-3+b1 [99.8 kB] Fetched 99.8 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp4zmxk1v4/libgl-dev_1.7.0-3+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 sed amd64 4.9-3 [331 kB] Fetched 331 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpwegpra1p/sed_4.9-3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libclipper-dev amd64 2.1.20201109-2+b4 [82.5 kB] Fetched 82.5 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp5sq4r190/libclipper-dev_2.1.20201109-2+b4_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 automake all 1:1.18.1-4 [877 kB] Fetched 877 kB in 0s (70.0 MB/s) dpkg-name: info: moved 'automake_1%3a1.18.1-4_all.deb' to '/srv/rebuilderd/tmp/tmpif97xmgt/automake_1.18.1-4_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libucx0 amd64 1.20.1~rc2-1 [955 kB] Fetched 955 kB in 0s (4901 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpy1ahwrzk/libucx0_1.20.1~rc2-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxres1 amd64 2:1.2.1-2 [17.9 kB] Fetched 17.9 kB in 0s (0 B/s) dpkg-name: info: moved 'libxres1_2%3a1.2.1-2_amd64.deb' to '/srv/rebuilderd/tmp/tmpfrpv9uka/libxres1_1.2.1-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libnl-route-3-200 amd64 3.12.0-2+b1 [200 kB] Fetched 200 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpsbvun3_r/libnl-route-3-200_3.12.0-2+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libjbig0 amd64 2.1-6.1+b3 [32.2 kB] Fetched 32.2 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpwndz50xt/libjbig0_2.1-6.1+b3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libdrm-amdgpu1 amd64 2.4.131-1+b1 [23.2 kB] Fetched 23.2 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpq92msaqn/libdrm-amdgpu1_2.4.131-1+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxxhash0 amd64 0.8.3-2+b2 [27.1 kB] Fetched 27.1 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp18uy54n4/libxxhash0_0.8.3-2+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libboost-python1.90-dev amd64 1.90.0-6 [359 kB] Fetched 359 kB in 0s (4274 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpge8_yrm2/libboost-python1.90-dev_1.90.0-6_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 file amd64 1:5.46-5+b2 [42.6 kB] Fetched 42.6 kB in 0s (0 B/s) dpkg-name: info: moved 'file_1%3a5.46-5+b2_amd64.deb' to '/srv/rebuilderd/tmp/tmpfd053wtw/file_5.46-5+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libheif-plugin-libde265 amd64 1.21.2-4 [16.9 kB] Fetched 16.9 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpn_d732n3/libheif-plugin-libde265_1.21.2-4_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-typing-extensions all 4.15.0-2 [92.5 kB] Fetched 92.5 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp60y30w_x/python3-typing-extensions_4.15.0-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libaudit1 amd64 1:4.1.2-1+b1 [60.2 kB] Fetched 60.2 kB in 0s (0 B/s) dpkg-name: info: moved 'libaudit1_1%3a4.1.2-1+b1_amd64.deb' to '/srv/rebuilderd/tmp/tmp_mli25er/libaudit1_4.1.2-1+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 openssl amd64 3.6.2-1 [1517 kB] Fetched 1517 kB in 0s (103 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp57d4fkv7/openssl_3.6.2-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libgpg-error0 amd64 1.59-4 [88.5 kB] Fetched 88.5 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpwgmosdyj/libgpg-error0_1.59-4_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libglib2.0-0t64 amd64 2.88.1-2 [1536 kB] Fetched 1536 kB in 0s (105 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmphj8_ah89/libglib2.0-0t64_2.88.1-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libuchardet0 amd64 0.0.8-2+b2 [69.0 kB] Fetched 69.0 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp1z6dmurp/libuchardet0_0.0.8-2+b2_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libdebconfclient0 amd64 0.282+b3 [7720 B] Fetched 7720 B in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp2iek8ofu/libdebconfclient0_0.282+b3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libcbf1t64 amd64 0.9.7+dfsg1-5.1+b1 [365 kB] Fetched 365 kB in 0s (9565 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpqwdxpkwv/libcbf1t64_0.9.7+dfsg1-5.1+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libatspi2.0-0t64 amd64 2.60.3-1 [81.7 kB] Fetched 81.7 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpv13gu4du/libatspi2.0-0t64_2.60.3-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libboost-chrono1.90.0 amd64 1.90.0-6 [232 kB] Fetched 232 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpqfpknvsu/libboost-chrono1.90.0_1.90.0-6_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 w3c-sgml-lib all 1.3-3 [273 kB] Fetched 273 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmplxbz0hmo/w3c-sgml-lib_1.3-3_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 python3-biopython amd64 1.86+dfsg-1+b1 [1632 kB] Fetched 1632 kB in 0s (80.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpnc2xldjp/python3-biopython_1.86+dfsg-1+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libjpeg62-turbo-dev amd64 1:3.1.3-4 [356 kB] Fetched 356 kB in 0s (0 B/s) dpkg-name: info: moved 'libjpeg62-turbo-dev_1%3a3.1.3-4_amd64.deb' to '/srv/rebuilderd/tmp/tmp5prunfs6/libjpeg62-turbo-dev_3.1.3-4_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3.13-dev amd64 3.13.12-1 [504 kB] Fetched 504 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpwjy73hrd/python3.13-dev_3.13.12-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libqt5opengl5t64 amd64 5.15.17+dfsg-8 [145 kB] Fetched 145 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpvs5ell3s/libqt5opengl5t64_5.15.17+dfsg-8_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libasyncns0 amd64 0.8-7+b2 [12.4 kB] Fetched 12.4 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpzx46ndaw/libasyncns0_0.8-7+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libyuv0 amd64 0.0.1922.20260106-1+b1 [175 kB] Fetched 175 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpg2fpfhl8/libyuv0_0.0.1922.20260106-1+b1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libkrb5-dev amd64 1.22.1-2+b1 [14.0 kB] Fetched 14.0 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpcvrbsjn5/libkrb5-dev_1.22.1-2+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libacl1 amd64 2.3.2-3 [32.7 kB] Fetched 32.7 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmphudhynh5/libacl1_2.3.2-3_amd64.deb' Downloading dependency 129 of 688: libgl1:amd64=1.7.0-3+b1 Downloading dependency 130 of 688: libann-cctbx0:amd64=1.1.2+doc-9+b1 Downloading dependency 131 of 688: python3-h5py-serial:amd64=3.16.0-2 Downloading dependency 132 of 688: libgdk-pixbuf-2.0-0:amd64=2.44.6+dfsg-2 Downloading dependency 133 of 688: dpkg:amd64=1.23.7 Downloading dependency 134 of 688: pybuild-plugin-pyproject:amd64=7.20260309 Downloading dependency 135 of 688: libexpat1:amd64=2.8.0-1 Downloading dependency 136 of 688: autopoint:amd64=0.23.2-2 Downloading dependency 137 of 688: libqt5network5t64:amd64=5.15.17+dfsg-8 Downloading dependency 138 of 688: libxcb-util1:amd64=0.4.1-1+b2 Downloading dependency 139 of 688: libboost-numpy1.90.0:amd64=1.90.0-6 Downloading dependency 140 of 688: libmmdb2-0:amd64=2.0.22-1+b3 Downloading dependency 141 of 688: libtasn1-6-dev:amd64=4.21.0-2+b1 Downloading dependency 142 of 688: dbus:amd64=1.16.2-4 Downloading dependency 143 of 688: fftw2:amd64=2.1.5-8 Downloading dependency 144 of 688: libqt5printsupport5t64:amd64=5.15.17+dfsg-8 Downloading dependency 145 of 688: libwayland-client0:amd64=1.24.0-2+b2 Downloading dependency 146 of 688: gettext:amd64=0.23.2-2 Downloading dependency 147 of 688: libsystemd-shared:amd64=260.1-1 Downloading dependency 148 of 688: libharfbuzz0b:amd64=12.3.2-2+b2 Downloading dependency 149 of 688: libthai0:amd64=0.1.30-1+b1 Downloading dependency 150 of 688: python3-jaraco.functools:amd64=4.1.0-1 Downloading dependency 151 of 688: mawk:amd64=1.3.4.20260302-1 Downloading dependency 152 of 688: libxshmfence1:amd64=1.3.3-1+b2 Downloading dependency 153 of 688: libvorbis0a:amd64=1.3.7-3+b2 Downloading dependency 154 of 688: libkdb5-10t64:amd64=1.22.1-2+b1 Downloading dependency 155 of 688: libproc2-0:amd64=2:4.0.4-9+b2 Downloading dependency 156 of 688: libboost1.90-dev:amd64=1.90.0-6 Downloading dependency 157 of 688: unicode-data:amd64=17.0.0-2 Downloading dependency 158 of 688: libsmartcols1:amd64=2.42-6 Downloading dependency 159 of 688: libpmix2t64:amd64=6.0.0+really5.0.9-3+b1 Downloading dependency 160 of 688: libdebhelper-perl:amd64=13.31 Downloading dependency 161 of 688: libccp4c0t64:amd64=8.0.0-5+b1 Downloading dependency 162 of 688: linux-libc-dev:amd64=7.0.3-1 Downloading dependency 163 of 688: libxcb-xkb1:amd64=1.17.0-2+b2 Downloading dependency 164 of 688: fonts-dejavu-extra:amd64=2.37-9 Downloading dependency 165 of 688: python3-urllib3:amd64=2.6.3-2 Downloading dependency 166 of 688: patch:amd64=2.8-2 Downloading dependency 167 of 688: libdbus-1-3:amd64=1.16.2-4 Downloading dependency 168 of 688: liblerc4:amd64=4.1.0+ds-1 Downloading dependency 169 of 688: python3-typeguard:amd64=4.4.4-2 Downloading dependency 170 of 688: python3-pint:amd64=0.25.3-1 Downloading dependency 171 of 688: libpam-modules:amd64=1.7.0-5+b2 Downloading dependency 172 of 688: libglx0:amd64=1.7.0-3+b1 Downloading dependency 173 of 688: libkeyutils1:amd64=1.6.3-6+b2 Downloading dependency 174 of 688: libevent-core-2.1-7t64:amd64=2.1.12-stable-10+b2 Downloading dependency 175 of 688: dpkg-dev:amd64=1.23.7 Downloading dependency 176 of 688: librav1e0.8:amd64=0.8.1-10 Downloading dependency 177 of 688: python3-build:amd64=1.4.0-1 Downloading dependency 178 of 688: libwebp7:amd64=1.5.0-0.1+b2 Downloading dependency 179 of 688: libccp4f0t64:amd64=8.0.0-5+b1 Downloading dependency 180 of 688: libboost-container1.90-dev:amd64=1.90.0-6 Downloading dependency 181 of 688: libselinux1:amd64=3.10-1 Downloading dependency 182 of 688: libp11-kit-dev:amd64=0.26.2-2 Downloading dependency 183 of 688: libnetcdf22:amd64=1:4.10.0-1 Downloading dependency 184 of 688: perl-base:amd64=5.40.1-7+b1 Downloading dependency 185 of 688: libfftw3-quad3:amd64=3.3.10-2+b2 Downloading dependency 186 of 688: libhdf5-hl-fortran-310:amd64=1.14.6+repack-2+b1 Downloading dependency 187 of 688: libncursesw6:amd64=6.6+20251231-1+b1 Downloading dependency 188 of 688: libxcb-xfixes0:amd64=1.17.0-2+b2 Downloading dependency 189 of 688: libcbf-dev:amd64=0.9.7+dfsg1-5.1+b1 Downloading dependency 190 of 688: libavahi-common3:amd64=0.8-18 Downloading dependency 191 of 688: libboost-test1.90-dev:amd64=1.90.0-6 Downloading dependency 192 of 688: libpangoft2-1.0-0:amd64=1.57.1-2 Downloading dependency 193 of 688: python3-wheel:amd64=0.47.0-1 Downloading dependency 194 of 688: python3-jaraco.text:amd64=4.0.0-1 Downloading dependency 195 of 688: ibverbs-providers:amd64=63.0-1 Downloading dependency 196 of 688: libboost-numpy-dev:amd64=1.90.0.2 Downloading dependency 197 of 688: python3-scipy:amd64=1.16.3-4 Downloading dependency 198 of 688: libpsm2-2:amd64=11.2.185-2.1 Downloading dependency 199 of 688: python3-fonttools:amd64=4.62.1-7 Downloading dependency 200 of 688: sfftw2:amd64=2.1.5-8 Downloading dependency 201 of 688: libvulkan1:amd64=1.4.341.0-1 Downloading dependency 202 of 688: base-files:amd64=14 Downloading dependency 203 of 688: debianutils:amd64=5.23.2 Downloading dependency 204 of 688: libqt5sql5t64:amd64=5.15.17+dfsg-8 Downloading dependency 205 of 688: liblzma-dev:amd64=5.8.3-1 Downloading dependency 206 of 688: xkb-data:amd64=2.47-1 Downloading dependency 207 of 688: libmmdb2-dev:amd64=2.0.22-1+b3 Downloading dependency 208 of 688: libx11-6:amd64=2:1.8.13-1 Downloading dependency 209 of 688: util-linux:amd64=2.42-6 Downloading dependency 210 of 688: liblsan0:amd64=16-20260425-1 Downloading dependency 211 of 688: libxcb-keysyms1:amd64=0.4.1-1+b2 Downloading dependency 212 of 688: libclipper2:amd64=2.1.20201109-2+b4 Downloading dependency 213 of 688: libkadm5srv-mit12:amd64=1.22.1-2+b1 Downloading dependency 214 of 688: libxi6:amd64=2:1.8.2-2+b1 Downloading dependency 215 of 688: libhdf5-hl-cpp-310:amd64=1.14.6+repack-2+b1 Downloading dependency 216 of 688: libblkid1:amd64=2.42-6 Downloading dependency 217 of 688: dconf-gsettings-backend:amd64=0.49.0-4+b1 Downloading dependency 218 of 688: groff-base:amd64=1.24.1-1 Downloading dependency 219 of 688: python3-hdf5plugin:amd64=5.1.0-1 Downloading dependency 220 of 688: python3-freetype:amd64=2.5.1-2 Downloading dependency 221 of 688: libgl-dev:amd64=1.7.0-3+b1 Downloading dependency 222 of 688: sed:amd64=4.9-3 Downloading dependency 223 of 688: libclipper-dev:amd64=2.1.20201109-2+b4 Downloading dependency 224 of 688: automake:amd64=1:1.18.1-4 Downloading dependency 225 of 688: libucx0:amd64=1.20.1~rc2-1 Downloading dependency 226 of 688: libxres1:amd64=2:1.2.1-2 Downloading dependency 227 of 688: libnl-route-3-200:amd64=3.12.0-2+b1 Downloading dependency 228 of 688: libjbig0:amd64=2.1-6.1+b3 Downloading dependency 229 of 688: libdrm-amdgpu1:amd64=2.4.131-1+b1 Downloading dependency 230 of 688: libxxhash0:amd64=0.8.3-2+b2 Downloading dependency 231 of 688: libboost-python1.90-dev:amd64=1.90.0-6 Downloading dependency 232 of 688: file:amd64=1:5.46-5+b2 Downloading dependency 233 of 688: libheif-plugin-libde265:amd64=1.21.2-4 Downloading dependency 234 of 688: python3-typing-extensions:amd64=4.15.0-2 Downloading dependency 235 of 688: libaudit1:amd64=1:4.1.2-1+b1 Downloading dependency 236 of 688: openssl:amd64=3.6.2-1 Downloading dependency 237 of 688: libgpg-error0:amd64=1.59-4 Downloading dependency 238 of 688: libglib2.0-0t64:amd64=2.88.1-2 Downloading dependency 239 of 688: libuchardet0:amd64=0.0.8-2+b2 Downloading dependency 240 of 688: libdebconfclient0:amd64=0.282+b3 Downloading dependency 241 of 688: libcbf1t64:amd64=0.9.7+dfsg1-5.1+b1 Downloading dependency 242 of 688: libatspi2.0-0t64:amd64=2.60.3-1 Downloading dependency 243 of 688: libboost-chrono1.90.0:amd64=1.90.0-6 Downloading dependency 244 of 688: w3c-sgml-lib:amd64=1.3-3 Downloading dependency 245 of 688: python3-biopython:amd64=1.86+dfsg-1+b1 Downloading dependency 246 of 688: libjpeg62-turbo-dev:amd64=1:3.1.3-4 Downloading dependency 247 of 688: python3.13-dev:amd64=3.13.12-1 Downloading dependency 248 of 688: libqt5opengl5t64:amd64=5.15.17+dfsg-8 Downloading dependency 249 of 688: libasyncns0:amd64=0.8-7+b2 Downloading dependency 250 of 688: libyuv0:amd64=0.0.1922.20260106-1+b1 Downloading dependency 251 of 688: libkrb5-dev:amd64=1.22.1-2+b1 Downloading dependency 252 of 688: libacl1:amd64=2.3.2-3 Downloading dependency 253 of 688: libpam-systemd:amd64=260.1-1Get:1 http://deb.debian.org/debian unstable/main amd64 libpam-systemd amd64 260.1-1 [299 kB] Fetched 299 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpvin83s_x/libpam-systemd_260.1-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libunistring5 amd64 1.4.2-1 [480 kB] Fetched 480 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpzdzt9iu9/libunistring5_1.4.2-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libssl-dev amd64 3.6.2-1 [3019 kB] Fetched 3019 kB in 0s (138 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp9hdmc8vy/libssl-dev_3.6.2-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libwayland-egl1 amd64 1.24.0-2+b2 [6216 B] Fetched 6216 B in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmps7v20m80/libwayland-egl1_1.24.0-2+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3 amd64 3.13.9-3+b1 [25.4 kB] Fetched 25.4 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpfv936jl8/python3_3.13.9-3+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 readline-common all 8.3-4 [74.8 kB] Fetched 74.8 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmphh1d2n7_/readline-common_8.3-4_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libgbm1 amd64 26.0.6-1 [54.7 kB] Fetched 54.7 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp1xvy5wpp/libgbm1_26.0.6-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libwacom-common all 2.18.0-1 [117 kB] Fetched 117 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp9tzbtkp8/libwacom-common_2.18.0-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libjpeg62-turbo amd64 1:3.1.3-4 [213 kB] Fetched 213 kB in 0s (0 B/s) dpkg-name: info: moved 'libjpeg62-turbo_1%3a3.1.3-4_amd64.deb' to '/srv/rebuilderd/tmp/tmp1nk9imxg/libjpeg62-turbo_3.1.3-4_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libubsan1 amd64 16-20260425-1 [1136 kB] Fetched 1136 kB in 0s (87.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp460eib77/libubsan1_16-20260425-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libdpkg-perl all 1.23.7 [669 kB] Fetched 669 kB in 0s (61.9 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmprb5raw3u/libdpkg-perl_1.23.7_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxcb-xinerama0 amd64 1.17.0-2+b2 [105 kB] Fetched 105 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp6_nu2on8/libxcb-xinerama0_1.17.0-2+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libpam0g amd64 1.7.0-5+b2 [66.3 kB] Fetched 66.3 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_tzfxgqi/libpam0g_1.7.0-5+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-cycler all 0.12.1-2 [9616 B] Fetched 9616 B in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpwhxnhdze/python3-cycler_0.12.1-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxcb-shape0 amd64 1.17.0-2+b2 [106 kB] Fetched 106 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpzefbowon/libxcb-shape0_1.17.0-2+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libgtk-3-0t64 amd64 3.24.52-1 [2920 kB] Fetched 2920 kB in 0s (137 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpaouxb5js/libgtk-3-0t64_3.24.52-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libcups2t64 amd64 2.4.18-1 [252 kB] Fetched 252 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp82r7df1_/libcups2t64_2.4.18-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3.13-tk amd64 3.13.12-1 [109 kB] Fetched 109 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp44ncahug/python3.13-tk_3.13.12-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libgles2 amd64 1.7.0-3+b1 [16.7 kB] Fetched 16.7 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp6z4thwnk/libgles2_1.7.0-3+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxslt1.1 amd64 1.1.45-0.1 [158 kB] Fetched 158 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp51xnspnb/libxslt1.1_1.1.45-0.1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libfftw3-dev amd64 3.3.10-2+b2 [2095 kB] Fetched 2095 kB in 0s (35.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpsvpqybf7/libfftw3-dev_3.3.10-2+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libflac14 amd64 1.5.0+ds-5+b1 [179 kB] Fetched 179 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp1wpxdwcc/libflac14_1.5.0+ds-5+b1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libstdc++6 amd64 16-20260425-1 [824 kB] Fetched 824 kB in 0s (72.8 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpxgrdalrs/libstdc++6_16-20260425-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-all amd64 3.13.9-3+b1 [1056 B] Fetched 1056 B in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpbf3t32xp/python3-all_3.13.9-3+b1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libexpat1-dev amd64 2.8.0-1 [171 kB] Fetched 171 kB in 0s (7284 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpkr0fyr4n/libexpat1-dev_2.8.0-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libdouble-conversion3 amd64 3.4.0-1+b1 [40.7 kB] Fetched 40.7 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpih2p5o5a/libdouble-conversion3_3.4.0-1+b1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 krb5-multidev amd64 1.22.1-2+b1 [125 kB] Fetched 125 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpqp45d9qh/krb5-multidev_1.22.1-2+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libantlr3c-3.4-0 amd64 3.4+dfsg-4+b3 [51.5 kB] Fetched 51.5 kB in 0s (2299 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpulghwfec/libantlr3c-3.4-0_3.4+dfsg-4+b3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 at-spi2-common all 2.60.3-1 [173 kB] Fetched 173 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpa490m58w/at-spi2-common_2.60.3-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libglu1-mesa-dev amd64 9.0.2-1.1+b4 [229 kB] Fetched 229 kB in 0s (9409 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpg05d_wnt/libglu1-mesa-dev_9.0.2-1.1+b4_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libkrb5-3 amd64 1.22.1-2+b1 [336 kB] Fetched 336 kB in 0s (2076 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpnq1psb_b/libkrb5-3_1.22.1-2+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 debhelper all 13.31 [932 kB] Fetched 932 kB in 0s (72.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpd2192x8g/debhelper_13.31_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libqt5gui5t64 amd64 5.15.17+dfsg-8 [3526 kB] Fetched 3526 kB in 0s (27.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp2njd52mh/libqt5gui5t64_5.15.17+dfsg-8_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libwacom9 amd64 2.18.0-1 [27.0 kB] Fetched 27.0 kB in 0s (2482 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpwbfh48zt/libwacom9_2.18.0-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 liblzma5 amd64 5.8.3-1 [332 kB] Fetched 332 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp__wkqtl9/liblzma5_5.8.3-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 g++-15 amd64 15.2.0-17 [28.0 kB] Fetched 28.0 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpa_rzyhv7/g++-15_15.2.0-17_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-mrcfile all 1.5.4-3 [118 kB] Fetched 118 kB in 0s (3203 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpj6qia1bx/python3-mrcfile_1.5.4-3_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libqt5designer5 amd64 5.15.17-4+b1 [2770 kB] Fetched 2770 kB in 0s (57.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpyo_yw6e1/libqt5designer5_5.15.17-4+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-dev amd64 3.13.9-3+b1 [29.8 kB] Fetched 29.8 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpy7mb9pfa/python3-dev_3.13.9-3+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libbinutils amd64 2.46-3 [548 kB] Fetched 548 kB in 0s (54.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpr9tp3n6d/libbinutils_2.46-3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libdrm-common all 2.4.131-1 [9168 B] Fetched 9168 B in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpirg7m7mg/libdrm-common_2.4.131-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libabsl20260107 amd64 20260107.0-5 [549 kB] Fetched 549 kB in 0s (53.9 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpvmdncbc6/libabsl20260107_20260107.0-5_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 xorg-sgml-doctools all 1:1.12.1-1 [23.9 kB] Fetched 23.9 kB in 0s (0 B/s) dpkg-name: info: moved 'xorg-sgml-doctools_1%3a1.12.1-1_all.deb' to '/srv/rebuilderd/tmp/tmpkovmnluq/xorg-sgml-doctools_1.12.1-1_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libatomic1 amd64 16-20260425-1 [10.5 kB] Fetched 10.5 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpwqbyn7ch/libatomic1_16-20260425-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libedit2 amd64 3.1-20251016-1+b1 [93.3 kB] Fetched 93.3 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpnqbgip2k/libedit2_3.1-20251016-1+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-trove-classifiers all 2026.1.14.14-1 [10.9 kB] Fetched 10.9 kB in 0s (532 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpnc0x3zad/python3-trove-classifiers_2026.1.14.14-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 gcc-15-x86-64-linux-gnu amd64 15.2.0-17 [23.4 MB] Fetched 23.4 MB in 0s (197 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmps6c6moej/gcc-15-x86-64-linux-gnu_15.2.0-17_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 pkgconf-bin amd64 2.5.1-4 [35.9 kB] Fetched 35.9 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp06ylvwfc/pkgconf-bin_2.5.1-4_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libcom-err2 amd64 1.47.4-1 [19.2 kB] Fetched 19.2 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpt38l2wlz/libcom-err2_1.47.4-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 fonts-lato all 2.015-1 [2780 kB] Fetched 2780 kB in 0s (133 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp472mo517/fonts-lato_2.015-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libatk1.0-0t64 amd64 2.60.3-1 [49.7 kB] Fetched 49.7 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp0aitdocq/libatk1.0-0t64_2.60.3-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libfribidi0 amd64 1.0.16-5+b1 [26.2 kB] Fetched 26.2 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp9ap8g1wx/libfribidi0_1.0.16-5+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 librtmp-dev amd64 2.6-1 [69.7 kB] Fetched 69.7 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpwephgj1n/librtmp-dev_2.6-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libze1 amd64 1.28.2-2 [795 kB] Fetched 795 kB in 0s (3357 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpwwfopf9y/libze1_1.28.2-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libboost-regex1.90-dev amd64 1.90.0-6 [343 kB] Fetched 343 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmppzxegnwq/libboost-regex1.90-dev_1.90.0-6_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libatk-bridge2.0-0t64 amd64 2.60.3-1 [66.7 kB] Fetched 66.7 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpw328z3yf/libatk-bridge2.0-0t64_2.60.3-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxtst6 amd64 2:1.2.5-1+b2 [26.2 kB] Fetched 26.2 kB in 0s (0 B/s) dpkg-name: info: moved 'libxtst6_2%3a1.2.5-1+b2_amd64.deb' to '/srv/rebuilderd/tmp/tmpv6072578/libxtst6_1.2.5-1+b2_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libcurl3t64-gnutls amd64 8.20.0-1 [403 kB] Fetched 403 kB in 0s (9100 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpx0y3x1gt/libcurl3t64-gnutls_8.20.0-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 cpp-x86-64-linux-gnu amd64 4:15.2.0-5+b1 [4644 B] Fetched 4644 B in 0s (0 B/s) dpkg-name: info: moved 'cpp-x86-64-linux-gnu_4%3a15.2.0-5+b1_amd64.deb' to '/srv/rebuilderd/tmp/tmpt5kwbcay/cpp-x86-64-linux-gnu_15.2.0-5+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libhdf5-dev amd64 1.14.6+repack-2+b1 [3196 kB] Fetched 3196 kB in 0s (142 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp2ikk8twy/libhdf5-dev_1.14.6+repack-2+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxcb-glx0 amd64 1.17.0-2+b2 [122 kB] Fetched 122 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmphfe6qxff/libxcb-glx0_1.17.0-2+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxcb-xinput0 amd64 1.17.0-2+b2 [130 kB] Fetched 130 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpy2refsjt/libxcb-xinput0_1.17.0-2+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libnghttp2-dev amd64 1.69.0-1 [128 kB] Fetched 128 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpy6dec5sf/libnghttp2-dev_1.69.0-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libqhull-r8.0 amd64 2020.2-9 [248 kB] Fetched 248 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp4a1n49yp/libqhull-r8.0_2020.2-9_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libnghttp3-9 amd64 1.15.0-1 [67.2 kB] Fetched 67.2 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpfvjm0anc/libnghttp3-9_1.15.0-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libx11-xcb1 amd64 2:1.8.13-1 [250 kB] Fetched 250 kB in 0s (20.7 MB/s) dpkg-name: info: moved 'libx11-xcb1_2%3a1.8.13-1_amd64.deb' to '/srv/rebuilderd/tmp/tmpgclcxyxt/libx11-xcb1_1.8.13-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-installer all 1.0.0+dfsg1-1 [19.4 kB] Fetched 19.4 kB in 0s (1038 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpo4jqz8px/python3-installer_1.0.0+dfsg1-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libvorbisenc2 amd64 1.3.7-3+b2 [76.1 kB] Fetched 76.1 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpmywe3mof/libvorbisenc2_1.3.7-3+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 init-system-helpers all 1.69 [39.3 kB] Fetched 39.3 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp46774fyq/init-system-helpers_1.69_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 g++-x86-64-linux-gnu amd64 4:15.2.0-5+b1 [1204 B] Fetched 1204 B in 0s (0 B/s) dpkg-name: info: moved 'g++-x86-64-linux-gnu_4%3a15.2.0-5+b1_amd64.deb' to '/srv/rebuilderd/tmp/tmp__spkcb9/g++-x86-64-linux-gnu_15.2.0-5+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libqt5test5t64 amd64 5.15.17+dfsg-8 [145 kB] Fetched 145 kB in 0s (2375 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpmtqgpfxs/libqt5test5t64_5.15.17+dfsg-8_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libcurl4-openssl-dev amd64 8.20.0-1 [533 kB] Fetched 533 kB in 0s (10.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp1e6qj24z/libcurl4-openssl-dev_8.20.0-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libibmad5 amd64 63.0-1 [43.0 kB] Fetched 43.0 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpmx75hj96/libibmad5_63.0-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libpsl-dev amd64 0.21.5-1 [80.5 kB] Fetched 80.5 kB in 0s (7514 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpjy9skm7w/libpsl-dev_0.21.5-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 librsvg2-2 amd64 2.62.1+dfsg-1 [1828 kB] Fetched 1828 kB in 0s (115 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpbp7ku8ty/librsvg2-2_2.62.1+dfsg-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libtinfo6 amd64 6.6+20251231-1+b1 [350 kB] Fetched 350 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp1saox4go/libtinfo6_6.6+20251231-1+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libpcre2-16-0 amd64 10.46-1+b2 [280 kB] Fetched 280 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp69qp9xw_/libpcre2-16-0_10.46-1+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libelf1t64 amd64 0.195-1 [58.1 kB] Fetched 58.1 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpqnfch1vv/libelf1t64_0.195-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-pkg-resources all 78.1.1-0.1 [224 kB] Fetched 224 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpam1zfj2s/python3-pkg-resources_78.1.1-0.1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libgav1-2 amd64 0.20.0-2+b1 [372 kB] Fetched 372 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpzex0q_5f/libgav1-2_0.20.0-2+b1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libjs-sphinxdoc all 9.1.0-2 [25.2 kB] Fetched 25.2 kB in 0s (557 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpu2p6gzlk/libjs-sphinxdoc_9.1.0-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libclang-common-21-dev amd64 1:21.1.8-7+b1 [767 kB] Fetched 767 kB in 0s (64.9 MB/s) dpkg-name: info: moved 'libclang-common-21-dev_1%3a21.1.8-7+b1_amd64.deb' to '/srv/rebuilderd/tmp/tmpr8z0qobl/libclang-common-21-dev_21.1.8-7+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libpixman-1-0 amd64 0.46.4-1+b2 [259 kB] Fetched 259 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpw1hh92bj/libpixman-1-0_0.46.4-1+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-pyparsing all 3.3.2-2 [165 kB] Fetched 165 kB in 0s (3303 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp00eqxy2i/python3-pyparsing_3.3.2-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libgnutls-dane0t64 amd64 3.8.13-1 [496 kB] Fetched 496 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpv1uvuthe/libgnutls-dane0t64_3.8.13-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libglut3.12 amd64 3.4.0-6+b2 [142 kB] Fetched 142 kB in 0s (3033 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpb0c6om2j/libglut3.12_3.4.0-6+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 cpp amd64 4:15.2.0-5+b1 [1568 B] Fetched 1568 B in 0s (0 B/s) dpkg-name: info: moved 'cpp_4%3a15.2.0-5+b1_amd64.deb' to '/srv/rebuilderd/tmp/tmp9u678xkp/cpp_15.2.0-5+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 fontconfig amd64 2.17.1-5 [191 kB] Fetched 191 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp45tscgki/fontconfig_2.17.1-5_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libtiff6 amd64 4.7.1-2 [357 kB] Fetched 357 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpt0eukede/libtiff6_4.7.1-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 librtmp1 amd64 2.6-1 [60.3 kB] Fetched 60.3 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpv3yho700/librtmp1_2.6-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-pygments all 2.19.2+dfsg-1 [847 kB] Fetched 847 kB in 0s (74.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmppxwuhxrr/python3-pygments_2.19.2+dfsg-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxcb1-dev amd64 1.17.0-2+b2 [181 kB] Fetched 181 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp4u779xdm/libxcb1-dev_1.17.0-2+b2_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libssh2-1-dev amd64 1.11.1-2 [393 kB] Fetched 393 kB in 0s (3430 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpzqtyxb5j/libssh2-1-dev_1.11.1-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libtiff-dev amd64 4.7.1-2 [503 kB] Fetched 503 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp8drg5kqf/libtiff-dev_4.7.1-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libboost-thread1.90.0 amd64 1.90.0-6 [255 kB] Fetched 255 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpiafn77ww/libboost-thread1.90.0_1.90.0-6_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libhdf5-hl-310 amd64 1.14.6+repack-2+b1 [63.3 kB] Fetched 63.3 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp1n92ql7s/libhdf5-hl-310_1.14.6+repack-2+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libzstd1 amd64 1.5.7+dfsg-3+b2 [305 kB] Fetched 305 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpk_8sca53/libzstd1_1.5.7+dfsg-3+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libhwloc-plugins amd64 2.13.0-2 [23.5 kB] Fetched 23.5 kB in 0s (1539 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpap9tspth/libhwloc-plugins_2.13.0-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 ca-certificates all 20260223 [158 kB] Fetched 158 kB in 0s (14.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpo0j1ww0y/ca-certificates_20260223_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libunbound8 amd64 1.25.0-1 [618 kB] Fetched 618 kB in 0s (59.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpehj5no61/libunbound8_1.25.0-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-procrunner all 2.3.3-2 [13.9 kB] Fetched 13.9 kB in 0s (779 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpky2p484a/python3-procrunner_2.3.3-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libavahi-common-data amd64 0.8-18 [113 kB] Fetched 113 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp7l1fqr_l/libavahi-common-data_0.8-18_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libboost-atomic1.90.0 amd64 1.90.0-6 [227 kB] Fetched 227 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpew1nuw5o/libboost-atomic1.90.0_1.90.0-6_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libhwy1t64 amd64 1.3.0-2+b1 [707 kB] Fetched 707 kB in 0s (63.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp8mo635n7/libhwy1t64_1.3.0-2+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 liblz4-1 amd64 1.10.0-10 [70.3 kB] Fetched 70.3 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp8t071mpb/liblz4-1_1.10.0-10_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libctf-nobfd0 amd64 2.46-3 [160 kB] Fetched 160 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpur5n0zsy/libctf-nobfd0_2.46-3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libjpeg-dev amd64 1:3.1.3-4 [78.8 kB] Fetched 78.8 kB in 0s (0 B/s) dpkg-name: info: moved 'libjpeg-dev_1%3a3.1.3-4_amd64.deb' to '/srv/rebuilderd/tmp/tmp64xc1499/libjpeg-dev_3.1.3-4_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libnl-3-200 amd64 3.12.0-2+b1 [62.2 kB] Fetched 62.2 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpuresx931/libnl-3-200_3.12.0-2+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxrandr2 amd64 2:1.5.4-1+b4 [36.5 kB] Fetched 36.5 kB in 0s (0 B/s) dpkg-name: info: moved 'libxrandr2_2%3a1.5.4-1+b4_amd64.deb' to '/srv/rebuilderd/tmp/tmpptmgis5x/libxrandr2_1.5.4-1+b4_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libavif16 amd64 1.4.1-1+b1 [147 kB] Fetched 147 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmprhjjzh_l/libavif16_1.4.1-1+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libopenmpi40 amd64 5.0.10-1 [2018 kB] Fetched 2018 kB in 0s (24.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmph6sgzedg/libopenmpi40_5.0.10-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxinerama1 amd64 2:1.1.4-3+b5 [16.0 kB] Fetched 16.0 kB in 0s (0 B/s) dpkg-name: info: moved 'libxinerama1_2%3a1.1.4-3+b5_amd64.deb' to '/srv/rebuilderd/tmp/tmpbj85ryne/libxinerama1_1.1.4-3+b5_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libopengl0 amd64 1.7.0-3+b1 [30.4 kB] Fetched 30.4 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpaoacnk69/libopengl0_1.7.0-3+b1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libc-gconv-modules-extra amd64 2.42-15 [1102 kB] Fetched 1102 kB in 0s (88.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpbjsz49b8/libc-gconv-modules-extra_2.42-15_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libpangocairo-1.0-0 amd64 1.57.1-2 [33.8 kB] Fetched 33.8 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_kzih8i7/libpangocairo-1.0-0_1.57.1-2_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libtsan2 amd64 16-20260425-1 [2572 kB] Fetched 2572 kB in 0s (132 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp8r3knghn/libtsan2_16-20260425-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxnvctrl0 amd64 535.171.04-1+b3 [14.1 kB] Fetched 14.1 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpoptmd9s6/libxnvctrl0_535.171.04-1+b3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libbz2-1.0 amd64 1.0.8-6+b2 [39.9 kB] Fetched 39.9 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmptuzapd8m/libbz2-1.0_1.0.8-6+b2_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libkrb5support0 amd64 1.22.1-2+b1 [31.0 kB] Fetched 31.0 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmppyyf1gik/libkrb5support0_1.22.1-2+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libldap2 amd64 2.6.10+dfsg-1+b2 [188 kB] Fetched 188 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp1tsvkhlv/libldap2_2.6.10+dfsg-1+b2_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libgcc-s1 amd64 16-20260425-1 [74.0 kB] Fetched 74.0 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmplmourh_e/libgcc-s1_16-20260425-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libidn2-dev amd64 2.3.8-4+b2 [102 kB] Fetched 102 kB in 0s (3363 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpbm54v39s/libidn2-dev_2.3.8-4+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libpython3.13-stdlib amd64 3.13.12-1 [1974 kB] Fetched 1974 kB in 0s (116 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp6cypfi44/libpython3.13-stdlib_3.13.12-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libsharpyuv0 amd64 1.5.0-0.1+b2 [115 kB] Fetched 115 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp9eow6q7m/libsharpyuv0_1.5.0-0.1+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libdconf1 amd64 0.49.0-4+b1 [42.5 kB] Fetched 42.5 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmptblab264/libdconf1_0.49.0-4+b1_amd64.deb' Downloading dependency 254 of 688: libunistring5:amd64=1.4.2-1 Downloading dependency 255 of 688: libssl-dev:amd64=3.6.2-1 Downloading dependency 256 of 688: libwayland-egl1:amd64=1.24.0-2+b2 Downloading dependency 257 of 688: python3:amd64=3.13.9-3+b1 Downloading dependency 258 of 688: readline-common:amd64=8.3-4 Downloading dependency 259 of 688: libgbm1:amd64=26.0.6-1 Downloading dependency 260 of 688: libwacom-common:amd64=2.18.0-1 Downloading dependency 261 of 688: libjpeg62-turbo:amd64=1:3.1.3-4 Downloading dependency 262 of 688: libubsan1:amd64=16-20260425-1 Downloading dependency 263 of 688: libdpkg-perl:amd64=1.23.7 Downloading dependency 264 of 688: libxcb-xinerama0:amd64=1.17.0-2+b2 Downloading dependency 265 of 688: libpam0g:amd64=1.7.0-5+b2 Downloading dependency 266 of 688: python3-cycler:amd64=0.12.1-2 Downloading dependency 267 of 688: libxcb-shape0:amd64=1.17.0-2+b2 Downloading dependency 268 of 688: libgtk-3-0t64:amd64=3.24.52-1 Downloading dependency 269 of 688: libcups2t64:amd64=2.4.18-1 Downloading dependency 270 of 688: python3.13-tk:amd64=3.13.12-1 Downloading dependency 271 of 688: libgles2:amd64=1.7.0-3+b1 Downloading dependency 272 of 688: libxslt1.1:amd64=1.1.45-0.1 Downloading dependency 273 of 688: libfftw3-dev:amd64=3.3.10-2+b2 Downloading dependency 274 of 688: libflac14:amd64=1.5.0+ds-5+b1 Downloading dependency 275 of 688: libstdc++6:amd64=16-20260425-1 Downloading dependency 276 of 688: python3-all:amd64=3.13.9-3+b1 Downloading dependency 277 of 688: libexpat1-dev:amd64=2.8.0-1 Downloading dependency 278 of 688: libdouble-conversion3:amd64=3.4.0-1+b1 Downloading dependency 279 of 688: krb5-multidev:amd64=1.22.1-2+b1 Downloading dependency 280 of 688: libantlr3c-3.4-0:amd64=3.4+dfsg-4+b3 Downloading dependency 281 of 688: at-spi2-common:amd64=2.60.3-1 Downloading dependency 282 of 688: libglu1-mesa-dev:amd64=9.0.2-1.1+b4 Downloading dependency 283 of 688: libkrb5-3:amd64=1.22.1-2+b1 Downloading dependency 284 of 688: debhelper:amd64=13.31 Downloading dependency 285 of 688: libqt5gui5t64:amd64=5.15.17+dfsg-8 Downloading dependency 286 of 688: libwacom9:amd64=2.18.0-1 Downloading dependency 287 of 688: liblzma5:amd64=5.8.3-1 Downloading dependency 288 of 688: g++-15:amd64=15.2.0-17 Downloading dependency 289 of 688: python3-mrcfile:amd64=1.5.4-3 Downloading dependency 290 of 688: libqt5designer5:amd64=5.15.17-4+b1 Downloading dependency 291 of 688: python3-dev:amd64=3.13.9-3+b1 Downloading dependency 292 of 688: libbinutils:amd64=2.46-3 Downloading dependency 293 of 688: libdrm-common:amd64=2.4.131-1 Downloading dependency 294 of 688: libabsl20260107:amd64=20260107.0-5 Downloading dependency 295 of 688: xorg-sgml-doctools:amd64=1:1.12.1-1 Downloading dependency 296 of 688: libatomic1:amd64=16-20260425-1 Downloading dependency 297 of 688: libedit2:amd64=3.1-20251016-1+b1 Downloading dependency 298 of 688: python3-trove-classifiers:amd64=2026.1.14.14-1 Downloading dependency 299 of 688: gcc-15-x86-64-linux-gnu:amd64=15.2.0-17 Downloading dependency 300 of 688: pkgconf-bin:amd64=2.5.1-4 Downloading dependency 301 of 688: libcom-err2:amd64=1.47.4-1 Downloading dependency 302 of 688: fonts-lato:amd64=2.015-1 Downloading dependency 303 of 688: libatk1.0-0t64:amd64=2.60.3-1 Downloading dependency 304 of 688: libfribidi0:amd64=1.0.16-5+b1 Downloading dependency 305 of 688: librtmp-dev:amd64=2.6-1 Downloading dependency 306 of 688: libze1:amd64=1.28.2-2 Downloading dependency 307 of 688: libboost-regex1.90-dev:amd64=1.90.0-6 Downloading dependency 308 of 688: libatk-bridge2.0-0t64:amd64=2.60.3-1 Downloading dependency 309 of 688: libxtst6:amd64=2:1.2.5-1+b2 Downloading dependency 310 of 688: libcurl3t64-gnutls:amd64=8.20.0-1 Downloading dependency 311 of 688: cpp-x86-64-linux-gnu:amd64=4:15.2.0-5+b1 Downloading dependency 312 of 688: libhdf5-dev:amd64=1.14.6+repack-2+b1 Downloading dependency 313 of 688: libxcb-glx0:amd64=1.17.0-2+b2 Downloading dependency 314 of 688: libxcb-xinput0:amd64=1.17.0-2+b2 Downloading dependency 315 of 688: libnghttp2-dev:amd64=1.69.0-1 Downloading dependency 316 of 688: libqhull-r8.0:amd64=2020.2-9 Downloading dependency 317 of 688: libnghttp3-9:amd64=1.15.0-1 Downloading dependency 318 of 688: libx11-xcb1:amd64=2:1.8.13-1 Downloading dependency 319 of 688: python3-installer:amd64=1.0.0+dfsg1-1 Downloading dependency 320 of 688: libvorbisenc2:amd64=1.3.7-3+b2 Downloading dependency 321 of 688: init-system-helpers:amd64=1.69 Downloading dependency 322 of 688: g++-x86-64-linux-gnu:amd64=4:15.2.0-5+b1 Downloading dependency 323 of 688: libqt5test5t64:amd64=5.15.17+dfsg-8 Downloading dependency 324 of 688: libcurl4-openssl-dev:amd64=8.20.0-1 Downloading dependency 325 of 688: libibmad5:amd64=63.0-1 Downloading dependency 326 of 688: libpsl-dev:amd64=0.21.5-1 Downloading dependency 327 of 688: librsvg2-2:amd64=2.62.1+dfsg-1 Downloading dependency 328 of 688: libtinfo6:amd64=6.6+20251231-1+b1 Downloading dependency 329 of 688: libpcre2-16-0:amd64=10.46-1+b2 Downloading dependency 330 of 688: libelf1t64:amd64=0.195-1 Downloading dependency 331 of 688: python3-pkg-resources:amd64=78.1.1-0.1 Downloading dependency 332 of 688: libgav1-2:amd64=0.20.0-2+b1 Downloading dependency 333 of 688: libjs-sphinxdoc:amd64=9.1.0-2 Downloading dependency 334 of 688: libclang-common-21-dev:amd64=1:21.1.8-7+b1 Downloading dependency 335 of 688: libpixman-1-0:amd64=0.46.4-1+b2 Downloading dependency 336 of 688: python3-pyparsing:amd64=3.3.2-2 Downloading dependency 337 of 688: libgnutls-dane0t64:amd64=3.8.13-1 Downloading dependency 338 of 688: libglut3.12:amd64=3.4.0-6+b2 Downloading dependency 339 of 688: cpp:amd64=4:15.2.0-5+b1 Downloading dependency 340 of 688: fontconfig:amd64=2.17.1-5 Downloading dependency 341 of 688: libtiff6:amd64=4.7.1-2 Downloading dependency 342 of 688: librtmp1:amd64=2.6-1 Downloading dependency 343 of 688: python3-pygments:amd64=2.19.2+dfsg-1 Downloading dependency 344 of 688: libxcb1-dev:amd64=1.17.0-2+b2 Downloading dependency 345 of 688: libssh2-1-dev:amd64=1.11.1-2 Downloading dependency 346 of 688: libtiff-dev:amd64=4.7.1-2 Downloading dependency 347 of 688: libboost-thread1.90.0:amd64=1.90.0-6 Downloading dependency 348 of 688: libhdf5-hl-310:amd64=1.14.6+repack-2+b1 Downloading dependency 349 of 688: libzstd1:amd64=1.5.7+dfsg-3+b2 Downloading dependency 350 of 688: libhwloc-plugins:amd64=2.13.0-2 Downloading dependency 351 of 688: ca-certificates:amd64=20260223 Downloading dependency 352 of 688: libunbound8:amd64=1.25.0-1 Downloading dependency 353 of 688: python3-procrunner:amd64=2.3.3-2 Downloading dependency 354 of 688: libavahi-common-data:amd64=0.8-18 Downloading dependency 355 of 688: libboost-atomic1.90.0:amd64=1.90.0-6 Downloading dependency 356 of 688: libhwy1t64:amd64=1.3.0-2+b1 Downloading dependency 357 of 688: liblz4-1:amd64=1.10.0-10 Downloading dependency 358 of 688: libctf-nobfd0:amd64=2.46-3 Downloading dependency 359 of 688: libjpeg-dev:amd64=1:3.1.3-4 Downloading dependency 360 of 688: libnl-3-200:amd64=3.12.0-2+b1 Downloading dependency 361 of 688: libxrandr2:amd64=2:1.5.4-1+b4 Downloading dependency 362 of 688: libavif16:amd64=1.4.1-1+b1 Downloading dependency 363 of 688: libopenmpi40:amd64=5.0.10-1 Downloading dependency 364 of 688: libxinerama1:amd64=2:1.1.4-3+b5 Downloading dependency 365 of 688: libopengl0:amd64=1.7.0-3+b1 Downloading dependency 366 of 688: libc-gconv-modules-extra:amd64=2.42-15 Downloading dependency 367 of 688: libpangocairo-1.0-0:amd64=1.57.1-2 Downloading dependency 368 of 688: libtsan2:amd64=16-20260425-1 Downloading dependency 369 of 688: libxnvctrl0:amd64=535.171.04-1+b3 Downloading dependency 370 of 688: libbz2-1.0:amd64=1.0.8-6+b2 Downloading dependency 371 of 688: libkrb5support0:amd64=1.22.1-2+b1 Downloading dependency 372 of 688: libldap2:amd64=2.6.10+dfsg-1+b2 Downloading dependency 373 of 688: libgcc-s1:amd64=16-20260425-1 Downloading dependency 374 of 688: libidn2-dev:amd64=2.3.8-4+b2 Downloading dependency 375 of 688: libpython3.13-stdlib:amd64=3.13.12-1 Downloading dependency 376 of 688: libsharpyuv0:amd64=1.5.0-0.1+b2 Downloading dependency 377 of 688: libdconf1:amd64=0.49.0-4+b1 Downloading dependency 378 of 688: libevent-pthreads-2.1-7t64:amd64=2.1.12-stable-10+b2Get:1 http://deb.debian.org/debian unstable/main amd64 libevent-pthreads-2.1-7t64 amd64 2.1.12-stable-10+b2 [54.3 kB] Fetched 54.3 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmps1al5gxy/libevent-pthreads-2.1-7t64_2.1.12-stable-10+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 nettle-dev amd64 3.10.2-1+b1 [1321 kB] Fetched 1321 kB in 0s (97.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpom7hvf8y/nettle-dev_3.10.2-1+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libstdc++-15-dev amd64 15.2.0-17 [2780 kB] Fetched 2780 kB in 0s (134 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpit_q50so/libstdc++-15-dev_15.2.0-17_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 xfonts-utils amd64 1:7.7+7 [93.3 kB] Fetched 93.3 kB in 0s (0 B/s) dpkg-name: info: moved 'xfonts-utils_1%3a7.7+7_amd64.deb' to '/srv/rebuilderd/tmp/tmp_xtpj2c2/xfonts-utils_7.7+7_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-legacy-cgi all 2.6.4-2 [16.9 kB] Fetched 16.9 kB in 0s (813 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpiaognxz7/python3-legacy-cgi_2.6.4-2_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 gcc-16-base amd64 16-20260425-1 [35.8 kB] Fetched 35.8 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmphkwsdcyn/gcc-16-base_16-20260425-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 dbus-session-bus-common all 1.16.2-4 [53.1 kB] Fetched 53.1 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_snxaiu4/dbus-session-bus-common_1.16.2-4_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libharfbuzz-subset0 amd64 12.3.2-2+b2 [574 kB] Fetched 574 kB in 0s (52.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp9lpsdtxk/libharfbuzz-subset0_12.3.2-2+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 g++ amd64 4:15.2.0-5+b1 [1344 B] Fetched 1344 B in 0s (0 B/s) dpkg-name: info: moved 'g++_4%3a15.2.0-5+b1_amd64.deb' to '/srv/rebuilderd/tmp/tmpqcrxo7p2/g++_15.2.0-5+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 rsync amd64 3.4.2+ds1-2 [428 kB] Fetched 428 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpkjdkuv44/rsync_3.4.2+ds1-2_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libquadmath0 amd64 16-20260425-1 [147 kB] Fetched 147 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmptt_dxj49/libquadmath0_16-20260425-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libpsl5t64 amd64 0.21.5-1 [59.9 kB] Fetched 59.9 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpicgl4qvn/libpsl5t64_0.21.5-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libjxl0.11 amd64 0.11.2-1 [1255 kB] Fetched 1255 kB in 0s (5188 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmprzia6rdn/libjxl0.11_0.11.2-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxrender1 amd64 1:0.9.12-1+b2 [27.7 kB] Fetched 27.7 kB in 0s (0 B/s) dpkg-name: info: moved 'libxrender1_1%3a0.9.12-1+b2_amd64.deb' to '/srv/rebuilderd/tmp/tmp_9lhr2pi/libxrender1_0.9.12-1+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 sphinx-rtd-theme-common all 3.1.0+dfsg-1 [1024 kB] Fetched 1024 kB in 0s (84.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpbiizlznr/sphinx-rtd-theme-common_3.1.0+dfsg-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 gcc amd64 4:15.2.0-5+b1 [5160 B] Fetched 5160 B in 0s (0 B/s) dpkg-name: info: moved 'gcc_4%3a15.2.0-5+b1_amd64.deb' to '/srv/rebuilderd/tmp/tmp3y4a3fm2/gcc_15.2.0-5+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libboost-thread1.90-dev amd64 1.90.0-6 [263 kB] Fetched 263 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp5b7ehszj/libboost-thread1.90-dev_1.90.0-6_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxss1 amd64 1:1.2.3-1+b4 [17.0 kB] Fetched 17.0 kB in 0s (0 B/s) dpkg-name: info: moved 'libxss1_1%3a1.2.3-1+b4_amd64.deb' to '/srv/rebuilderd/tmp/tmpfu1t5_t7/libxss1_1.2.3-1+b4_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libcap2 amd64 1:2.78-1 [26.9 kB] Fetched 26.9 kB in 0s (0 B/s) dpkg-name: info: moved 'libcap2_1%3a2.78-1_amd64.deb' to '/srv/rebuilderd/tmp/tmpby96ikdq/libcap2_2.78-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-pip all 26.0.1+dfsg-1 [1390 kB] Fetched 1390 kB in 0s (6192 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpe52ovced/python3-pip_26.0.1+dfsg-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libmp3lame0 amd64 3.101~svn6531+dfsg-1 [285 kB] Fetched 285 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpwjmtku9h/libmp3lame0_3.101~svn6531+dfsg-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libdeflate-dev amd64 1.23-2+b2 [56.9 kB] Fetched 56.9 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpcgbcby_7/libdeflate-dev_1.23-2+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3.13 amd64 3.13.12-1 [776 kB] Fetched 776 kB in 0s (71.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpwuwq4x88/python3.13_3.13.12-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libpython3-all-dev amd64 3.13.9-3+b1 [1080 B] Fetched 1080 B in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpan47hmdd/libpython3-all-dev_3.13.9-3+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-ordered-set all 4.1.0-1 [9628 B] Fetched 9628 B in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_kge5bp9/python3-ordered-set_4.1.0-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 make amd64 4.4.1-3 [463 kB] Fetched 463 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_ynhe_ci/make_4.4.1-3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libdrm-intel1 amd64 2.4.131-1+b1 [64.3 kB] Fetched 64.3 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpyytl1x_z/libdrm-intel1_2.4.131-1+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 fonts-dejavu-core all 2.37-9 [840 kB] Fetched 840 kB in 0s (72.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpd6a1qeru/fonts-dejavu-core_2.37-9_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libaec0 amd64 1.1.6-1 [22.4 kB] Fetched 22.4 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmplb8o8pd0/libaec0_1.1.6-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-idna all 3.11-1 [41.7 kB] Fetched 41.7 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmplsoqk02h/python3-idna_3.11-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 po-debconf all 1.0.22 [216 kB] Fetched 216 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpjjoinmqa/po-debconf_1.0.22_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-chardet all 5.2.0+dfsg-2 [108 kB] Fetched 108 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpklbcahui/python3-chardet_5.2.0+dfsg-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libreadline8t64 amd64 8.3-4 [181 kB] Fetched 181 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpjgaw4n_y/libreadline8t64_8.3-4_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-more-itertools all 10.8.0-1 [71.7 kB] Fetched 71.7 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpatui19h1/python3-more-itertools_10.8.0-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 ncurses-base all 6.6+20251231-1 [277 kB] Fetched 277 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp3yrycdj1/ncurses-base_6.6+20251231-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libfontconfig1 amd64 2.17.1-5 [132 kB] Fetched 132 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpf2c4kdna/libfontconfig1_2.17.1-5_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libsdl2-2.0-0 amd64 2.32.68+ds-1 [119 kB] Fetched 119 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpdk9x9abb/libsdl2-2.0-0_2.32.68+ds-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxcb-image0 amd64 0.4.0-2+b3 [22.3 kB] Fetched 22.3 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpolx5s2dl/libxcb-image0_0.4.0-2+b3_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libgomp1 amd64 16-20260425-1 [151 kB] Fetched 151 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpnc6r8n5n/libgomp1_16-20260425-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libwebpdemux2 amd64 1.5.0-0.1+b2 [113 kB] Fetched 113 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpb9ptgmiu/libwebpdemux2_1.5.0-0.1+b2_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 python3.14 amd64 3.14.5~rc1-1 [841 kB] Fetched 841 kB in 0s (73.9 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpbfy0d_8l/python3.14_3.14.5~rc1-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libgnutls28-dev amd64 3.8.13-1 [1479 kB] Fetched 1479 kB in 0s (102 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpb5n04ujn/libgnutls28-dev_3.8.13-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libpango-1.0-0 amd64 1.57.1-2 [224 kB] Fetched 224 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpj4kckzm8/libpango-1.0-0_1.57.1-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 media-types all 14.0.0 [30.8 kB] Fetched 30.8 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp4a2kpf95/media-types_14.0.0_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 netbase all 6.5 [12.4 kB] Fetched 12.4 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp4vdxyr8w/netbase_6.5_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libboost-regex1.90.0 amd64 1.90.0-6 [327 kB] Fetched 327 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpwblrq14u/libboost-regex1.90.0_1.90.0-6_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 dbus-bin amd64 1.16.2-4 [80.9 kB] Fetched 80.9 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpjakoyq60/dbus-bin_1.16.2-4_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-contourpy amd64 1.3.3-1+b1 [295 kB] Fetched 295 kB in 0s (13.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpuyea3jyq/python3-contourpy_1.3.3-1+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-mpmath all 1.4.1-2 [448 kB] Fetched 448 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpqj94j33r/python3-mpmath_1.4.1-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libegl-mesa0 amd64 26.0.6-1 [133 kB] Fetched 133 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpfrb_b0id/libegl-mesa0_26.0.6-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 gzip amd64 1.13-1 [138 kB] Fetched 138 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp8mwr_28f/gzip_1.13-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 xfonts-encodings all 1:1.0.4-2.2 [577 kB] Fetched 577 kB in 0s (54.1 MB/s) dpkg-name: info: moved 'xfonts-encodings_1%3a1.0.4-2.2_all.deb' to '/srv/rebuilderd/tmp/tmp7003prxr/xfonts-encodings_1.0.4-2.2_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Fetched 22.9 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp4i6msgz6/intltool-debian_0.35.0+20060710.6_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-numpy-dev amd64 1:2.4.4+ds-2 [136 kB] Fetched 136 kB in 1s (218 kB/s) dpkg-name: info: moved 'python3-numpy-dev_1%3a2.4.4+ds-2_amd64.deb' to '/srv/rebuilderd/tmp/tmpvwtkhw80/python3-numpy-dev_2.4.4+ds-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libepoxy0 amd64 1.5.10-2+b2 [199 kB] Fetched 199 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpxtfsvs88/libepoxy0_1.5.10-2+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libgl1-mesa-dri amd64 26.0.6-1 [43.6 kB] Fetched 43.6 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpp0z2_wmb/libgl1-mesa-dri_26.0.6-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 liblerc-dev amd64 4.1.0+ds-1 [201 kB] Fetched 201 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp8yprv096/liblerc-dev_4.1.0+ds-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libmd0 amd64 1.1.0-2+b2 [36.2 kB] Fetched 36.2 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp5qfbt5k3/libmd0_1.1.0-2+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-ufolib2 all 0.18.1+dfsg1-1 [33.2 kB] Fetched 33.2 kB in 0s (1774 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpvbzn8cnz/python3-ufolib2_0.18.1+dfsg1-1_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libc-dev-bin amd64 2.42-15 [37.7 kB] Fetched 37.7 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpn7lbxmqp/libc-dev-bin_2.42-15_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 mesa-libgallium amd64 26.0.6-1 [10.4 MB] Fetched 10.4 MB in 0s (184 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpdtovlk15/mesa-libgallium_26.0.6-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 xz-utils amd64 5.8.3-1 [740 kB] Fetched 740 kB in 0s (62.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpz7g0ol22/xz-utils_5.8.3-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-numpy amd64 1:2.4.4+ds-2 [7331 kB] Fetched 7331 kB in 0s (14.9 MB/s) dpkg-name: info: moved 'python3-numpy_1%3a2.4.4+ds-2_amd64.deb' to '/srv/rebuilderd/tmp/tmpj14s0ztp/python3-numpy_2.4.4+ds-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 perl amd64 5.40.1-7+b1 [264 kB] Fetched 264 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpbnfhhqug/perl_5.40.1-7+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libboost-serialization1.90-dev amd64 1.90.0-6 [364 kB] Fetched 364 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmps6vpyajy/libboost-serialization1.90-dev_1.90.0-6_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libngtcp2-crypto-gnutls8 amd64 1.22.1-1 [20.8 kB] Fetched 20.8 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_0rvjklm/libngtcp2-crypto-gnutls8_1.22.1-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libboost-date-time1.90.0 amd64 1.90.0-6 [222 kB] Fetched 222 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpfv72ohsa/libboost-date-time1.90.0_1.90.0-6_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libcc1-0 amd64 16-20260425-1 [46.4 kB] Fetched 46.4 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpvrl39z0b/libcc1-0_16-20260425-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 glycin-loaders amd64 2.0.8-1 [2781 kB] Fetched 2781 kB in 0s (133 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpjvr816tv/glycin-loaders_2.0.8-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 scons all 4.10.1+dfsg-2 [564 kB] Fetched 564 kB in 0s (10.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpg2sndvcy/scons_4.10.1+dfsg-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-pyqt5 amd64 5.15.11+dfsg-4 [2524 kB] Fetched 2524 kB in 0s (16.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmps7yng1a5/python3-pyqt5_5.15.11+dfsg-4_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libpkgconf7 amd64 2.5.1-4 [47.8 kB] Fetched 47.8 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpcg718gr2/libpkgconf7_2.5.1-4_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxcb1 amd64 1.17.0-2+b2 [144 kB] Fetched 144 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpao71jyx4/libxcb1_1.17.0-2+b2_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libtk8.6 amd64 8.6.17-1+b2 [800 kB] Fetched 800 kB in 0s (69.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpbpxdu2pp/libtk8.6_8.6.17-1+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libopengl-dev amd64 1.7.0-3+b1 [4580 B] Fetched 4580 B in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp88el9ejy/libopengl-dev_1.7.0-3+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxcb-randr0 amd64 1.17.0-2+b2 [117 kB] Fetched 117 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpyhhx9_91/libxcb-randr0_1.17.0-2+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-hatchling all 1.29.0-1 [46.9 kB] Fetched 46.9 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp2xy9wcnd/python3-hatchling_1.29.0-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libsvtav1enc4 amd64 4.1.0+dfsg-1 [2414 kB] Fetched 2414 kB in 0s (128 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp7sb1x1h8/libsvtav1enc4_4.1.0+dfsg-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libisl23 amd64 0.27-2 [664 kB] Fetched 664 kB in 0s (58.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpqp96v7rj/libisl23_0.27-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxcb-icccm4 amd64 0.4.2-1+b2 [27.7 kB] Fetched 27.7 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpgnpj1np3/libxcb-icccm4_0.4.2-1+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-pluggy all 1.6.0-2 [27.2 kB] Fetched 27.2 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpkmhqg_9w/python3-pluggy_1.6.0-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 dh-python all 7.20260309 [114 kB] Fetched 114 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpll12d1di/dh-python_7.20260309_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 binutils-x86-64-linux-gnu amd64 2.46-3 [1058 kB] Fetched 1058 kB in 0s (79.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp1y_b1mlj/binutils-x86-64-linux-gnu_2.46-3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 bsdextrautils amd64 2.42-6 [99.5 kB] Fetched 99.5 kB in 0s (7418 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpwlh2h9ww/bsdextrautils_2.42-6_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libpcre2-32-0 amd64 10.46-1+b2 [267 kB] Fetched 267 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmprcx97v1r/libpcre2-32-0_10.46-1+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 grep amd64 3.12-1 [443 kB] Fetched 443 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpcgy5v6l2/grep_3.12-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libgnutls30t64 amd64 3.8.13-1 [1546 kB] Fetched 1546 kB in 0s (106 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpowst2vcl/libgnutls30t64_3.8.13-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-tqdm all 4.67.3-1 [91.8 kB] Fetched 91.8 kB in 0s (2848 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpnab03u38/python3-tqdm_4.67.3-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libboost-serialization1.90.0 amd64 1.90.0-6 [326 kB] Fetched 326 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpipkklhtx/libboost-serialization1.90.0_1.90.0-6_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libnettle8t64 amd64 3.10.2-1+b1 [305 kB] Fetched 305 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpju9oiwv9/libnettle8t64_3.10.2-1+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxdamage1 amd64 1:1.1.7-1+b1 [16.3 kB] Fetched 16.3 kB in 0s (0 B/s) dpkg-name: info: moved 'libxdamage1_1%3a1.1.7-1+b1_amd64.deb' to '/srv/rebuilderd/tmp/tmpz1hsedzr/libxdamage1_1.1.7-1+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 m4 amd64 1.4.21-1 [332 kB] Fetched 332 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpu001q3o0/m4_1.4.21-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libngtcp2-crypto-ossl0 amd64 1.22.1-1 [23.3 kB] Fetched 23.3 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpi0imf1zc/libngtcp2-crypto-ossl0_1.22.1-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 gcc-15 amd64 15.2.0-17 [542 kB] Fetched 542 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpkdi882z1/gcc-15_15.2.0-17_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libboost-test1.90.0 amd64 1.90.0-6 [465 kB] Fetched 465 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp3skoy6ay/libboost-test1.90.0_1.90.0-6_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libmunge2 amd64 0.5.18-1 [18.8 kB] Fetched 18.8 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp939m8_d5/libmunge2_0.5.18-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 bubblewrap amd64 0.11.2-1 [52.2 kB] Fetched 52.2 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmplgq37lxx/bubblewrap_0.11.2-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libglu1-mesa amd64 9.0.2-1.1+b4 [191 kB] Fetched 191 kB in 0s (1547 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp5h4_cn0g/libglu1-mesa_9.0.2-1.1+b4_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxxhash-dev amd64 0.8.3-2+b2 [80.6 kB] Fetched 80.6 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpxi9fr64u/libxxhash-dev_0.8.3-2+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libldap-dev amd64 2.6.10+dfsg-1+b2 [305 kB] Fetched 305 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpptc26gsm/libldap-dev_2.6.10+dfsg-1+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libzstd-dev amd64 1.5.7+dfsg-3+b2 [372 kB] Fetched 372 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpf30qe5zn/libzstd-dev_1.5.7+dfsg-3+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libgprofng0 amd64 2.46-3 [820 kB] Fetched 820 kB in 0s (70.8 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpro6igcqo/libgprofng0_2.46-3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 dwz amd64 0.16-4 [108 kB] Fetched 108 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmplh2_ls51/dwz_0.16-4_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libsystemd0 amd64 260.1-1 [446 kB] Fetched 446 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpcx600v8j/libsystemd0_260.1-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-pymol amd64 3.1.0+dfsg-1+b3 [7259 kB] Fetched 7259 kB in 0s (35.9 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpa3jr3xx5/python3-pymol_3.1.0+dfsg-1+b3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxcb-render-util0 amd64 0.3.10-1+b2 [18.7 kB] Fetched 18.7 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpyc1g446d/libxcb-render-util0_0.3.10-1+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 liblzf1 amd64 3.6-4+b4 [10.1 kB] Fetched 10.1 kB in 0s (34.9 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_2qepwzc/liblzf1_3.6-4+b4_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libavahi-client3 amd64 0.8-18 [49.2 kB] Fetched 49.2 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp1s2cr0y7/libavahi-client3_0.8-18_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libsensors5 amd64 1:3.6.2-2+b2 [37.2 kB] Fetched 37.2 kB in 0s (0 B/s) dpkg-name: info: moved 'libsensors5_1%3a3.6.2-2+b2_amd64.deb' to '/srv/rebuilderd/tmp/tmpvx2x1ixt/libsensors5_3.6.2-2+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 fontconfig-config amd64 2.17.1-5 [56.1 kB] Fetched 56.1 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp85tzjlti/fontconfig-config_2.17.1-5_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libcap-ng0 amd64 0.9.3-1 [17.9 kB] Fetched 17.9 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpav_0pnvy/libcap-ng0_0.9.3-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 fonts-urw-base35 all 20200910-9 [10.8 MB] Fetched 10.8 MB in 0s (182 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp9rggcoil/fonts-urw-base35_20200910-9_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-six all 1.17.0-2 [16.6 kB] Fetched 16.6 kB in 0s (718 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp94xg0tha/python3-six_1.17.0-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libjansson4 amd64 2.14-2+b4 [40.1 kB] Fetched 40.1 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpi4phgg5x/libjansson4_2.14-2+b4_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 cpp-15-x86-64-linux-gnu amd64 15.2.0-17 [12.1 MB] Fetched 12.1 MB in 0s (182 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp06ogu8k0/cpp-15-x86-64-linux-gnu_15.2.0-17_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libngtcp2-crypto-ossl-dev amd64 1.22.1-1 [24.2 kB] Fetched 24.2 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpzjv8awtd/libngtcp2-crypto-ossl-dev_1.22.1-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-uharfbuzz amd64 0.53.3-1+b1 [219 kB] Fetched 219 kB in 0s (3019 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpizau9hp7/python3-uharfbuzz_0.53.3-1+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libfontenc1 amd64 1:1.1.8-1+b3 [23.4 kB] Fetched 23.4 kB in 0s (0 B/s) dpkg-name: info: moved 'libfontenc1_1%3a1.1.8-1+b3_amd64.deb' to '/srv/rebuilderd/tmp/tmpam4062pv/libfontenc1_1.1.8-1+b3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 debconf all 1.5.92 [123 kB] Fetched 123 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpsd314chh/debconf_1.5.92_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-reportlab all 4.4.10-1 [1173 kB] Fetched 1173 kB in 0s (9971 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmphhamt6qw/python3-reportlab_4.4.10-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libsqlite3-0 amd64 3.46.1-9+b1 [918 kB] Fetched 918 kB in 0s (79.8 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp7uixhjhj/libsqlite3-0_3.46.1-9+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libdrm2 amd64 2.4.131-1+b1 [38.6 kB] Fetched 38.6 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpl8miqwez/libdrm2_2.4.131-1+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libdav1d7 amd64 1.5.3-1+b2 [563 kB] Fetched 563 kB in 0s (54.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp3sxf_6k6/libdav1d7_1.5.3-1+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libimagequant0 amd64 4.4.1-1+b2 [255 kB] Fetched 255 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpb0izi7h0/libimagequant0_4.4.1-1+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libheif-plugin-dav1d amd64 1.21.2-4 [19.5 kB] Fetched 19.5 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmprrv1nlap/libheif-plugin-dav1d_1.21.2-4_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libheif1 amd64 1.21.2-4 [649 kB] Fetched 649 kB in 0s (63.2 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp1rtiucod/libheif1_1.21.2-4_amd64.deb' Downloading dependency 379 of 688: nettle-dev:amd64=3.10.2-1+b1 Downloading dependency 380 of 688: libstdc++-15-dev:amd64=15.2.0-17 Downloading dependency 381 of 688: xfonts-utils:amd64=1:7.7+7 Downloading dependency 382 of 688: python3-legacy-cgi:amd64=2.6.4-2 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dependency 398 of 688: libmp3lame0:amd64=3.101~svn6531+dfsg-1 Downloading dependency 399 of 688: libdeflate-dev:amd64=1.23-2+b2 Downloading dependency 400 of 688: python3.13:amd64=3.13.12-1 Downloading dependency 401 of 688: libpython3-all-dev:amd64=3.13.9-3+b1 Downloading dependency 402 of 688: python3-ordered-set:amd64=4.1.0-1 Downloading dependency 403 of 688: make:amd64=4.4.1-3 Downloading dependency 404 of 688: libdrm-intel1:amd64=2.4.131-1+b1 Downloading dependency 405 of 688: fonts-dejavu-core:amd64=2.37-9 Downloading dependency 406 of 688: libaec0:amd64=1.1.6-1 Downloading dependency 407 of 688: python3-idna:amd64=3.11-1 Downloading dependency 408 of 688: po-debconf:amd64=1.0.22 Downloading dependency 409 of 688: python3-chardet:amd64=5.2.0+dfsg-2 Downloading dependency 410 of 688: libreadline8t64:amd64=8.3-4 Downloading dependency 411 of 688: python3-more-itertools:amd64=10.8.0-1 Downloading dependency 412 of 688: ncurses-base:amd64=6.6+20251231-1 Downloading dependency 413 of 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libngtcp2-crypto-gnutls8:amd64=1.22.1-1 Downloading dependency 444 of 688: libboost-date-time1.90.0:amd64=1.90.0-6 Downloading dependency 445 of 688: libcc1-0:amd64=16-20260425-1 Downloading dependency 446 of 688: glycin-loaders:amd64=2.0.8-1 Downloading dependency 447 of 688: scons:amd64=4.10.1+dfsg-2 Downloading dependency 448 of 688: python3-pyqt5:amd64=5.15.11+dfsg-4 Downloading dependency 449 of 688: libpkgconf7:amd64=2.5.1-4 Downloading dependency 450 of 688: libxcb1:amd64=1.17.0-2+b2 Downloading dependency 451 of 688: libtk8.6:amd64=8.6.17-1+b2 Downloading dependency 452 of 688: libopengl-dev:amd64=1.7.0-3+b1 Downloading dependency 453 of 688: libxcb-randr0:amd64=1.17.0-2+b2 Downloading dependency 454 of 688: python3-hatchling:amd64=1.29.0-1 Downloading dependency 455 of 688: libsvtav1enc4:amd64=4.1.0+dfsg-1 Downloading dependency 456 of 688: libisl23:amd64=0.27-2 Downloading dependency 457 of 688: libxcb-icccm4:amd64=0.4.2-1+b2 Downloading dependency 458 of 688: python3-pluggy:amd64=1.6.0-2 Downloading dependency 459 of 688: dh-python:amd64=7.20260309 Downloading dependency 460 of 688: binutils-x86-64-linux-gnu:amd64=2.46-3 Downloading dependency 461 of 688: bsdextrautils:amd64=2.42-6 Downloading dependency 462 of 688: libpcre2-32-0:amd64=10.46-1+b2 Downloading dependency 463 of 688: grep:amd64=3.12-1 Downloading dependency 464 of 688: libgnutls30t64:amd64=3.8.13-1 Downloading dependency 465 of 688: python3-tqdm:amd64=4.67.3-1 Downloading dependency 466 of 688: libboost-serialization1.90.0:amd64=1.90.0-6 Downloading dependency 467 of 688: libnettle8t64:amd64=3.10.2-1+b1 Downloading dependency 468 of 688: libxdamage1:amd64=1:1.1.7-1+b1 Downloading dependency 469 of 688: m4:amd64=1.4.21-1 Downloading dependency 470 of 688: libngtcp2-crypto-ossl0:amd64=1.22.1-1 Downloading dependency 471 of 688: gcc-15:amd64=15.2.0-17 Downloading dependency 472 of 688: libboost-test1.90.0:amd64=1.90.0-6 Downloading dependency 473 of 688: libmunge2:amd64=0.5.18-1 Downloading dependency 474 of 688: bubblewrap:amd64=0.11.2-1 Downloading dependency 475 of 688: libglu1-mesa:amd64=9.0.2-1.1+b4 Downloading dependency 476 of 688: libxxhash-dev:amd64=0.8.3-2+b2 Downloading dependency 477 of 688: libldap-dev:amd64=2.6.10+dfsg-1+b2 Downloading dependency 478 of 688: libzstd-dev:amd64=1.5.7+dfsg-3+b2 Downloading dependency 479 of 688: libgprofng0:amd64=2.46-3 Downloading dependency 480 of 688: dwz:amd64=0.16-4 Downloading dependency 481 of 688: libsystemd0:amd64=260.1-1 Downloading dependency 482 of 688: python3-pymol:amd64=3.1.0+dfsg-1+b3 Downloading dependency 483 of 688: libxcb-render-util0:amd64=0.3.10-1+b2 Downloading dependency 484 of 688: liblzf1:amd64=3.6-4+b4 Downloading dependency 485 of 688: libavahi-client3:amd64=0.8-18 Downloading dependency 486 of 688: libsensors5:amd64=1:3.6.2-2+b2 Downloading dependency 487 of 688: fontconfig-config:amd64=2.17.1-5 Downloading dependency 488 of 688: libcap-ng0:amd64=0.9.3-1 Downloading dependency 489 of 688: fonts-urw-base35:amd64=20200910-9 Downloading dependency 490 of 688: python3-six:amd64=1.17.0-2 Downloading dependency 491 of 688: libjansson4:amd64=2.14-2+b4 Downloading dependency 492 of 688: cpp-15-x86-64-linux-gnu:amd64=15.2.0-17 Downloading dependency 493 of 688: libngtcp2-crypto-ossl-dev:amd64=1.22.1-1 Downloading dependency 494 of 688: python3-uharfbuzz:amd64=0.53.3-1+b1 Downloading dependency 495 of 688: libfontenc1:amd64=1:1.1.8-1+b3 Downloading dependency 496 of 688: debconf:amd64=1.5.92 Downloading dependency 497 of 688: python3-reportlab:amd64=4.4.10-1 Downloading dependency 498 of 688: libsqlite3-0:amd64=3.46.1-9+b1 Downloading dependency 499 of 688: libdrm2:amd64=2.4.131-1+b1 Downloading dependency 500 of 688: libdav1d7:amd64=1.5.3-1+b2 Downloading dependency 501 of 688: libimagequant0:amd64=4.4.1-1+b2 Downloading dependency 502 of 688: libheif-plugin-dav1d:amd64=1.21.2-4 Downloading dependency 503 of 688: libheif1:amd64=1.21.2-4 Downloading dependency 504 of 688: zlib1g:amd64=1:1.3.dfsg+really1.3.2-3Get:1 http://deb.debian.org/debian unstable/main amd64 zlib1g amd64 1:1.3.dfsg+really1.3.2-3 [90.9 kB] Fetched 90.9 kB in 0s (0 B/s) dpkg-name: info: moved 'zlib1g_1%3a1.3.dfsg+really1.3.2-3_amd64.deb' to '/srv/rebuilderd/tmp/tmp1tq1p7_c/zlib1g_1.3.dfsg+really1.3.2-3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libamd-comgr3 amd64 7.0.2+dfsg-3 [13.9 MB] Fetched 13.9 MB in 0s (189 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp4xzvri3o/libamd-comgr3_7.0.2+dfsg-3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libaec-dev amd64 1.1.6-1 [25.3 kB] Fetched 25.3 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpa6lzzzec/libaec-dev_1.1.6-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libmount1 amd64 2.42-6 [213 kB] Fetched 213 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp2urrr9c4/libmount1_2.42-6_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 python3-matplotlib amd64 3.10.7+dfsg1-3 [22.8 MB] Fetched 22.8 MB in 0s (197 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpz75eo847/python3-matplotlib_3.10.7+dfsg1-3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-pil amd64 12.2.0-1 [558 kB] Fetched 558 kB in 0s (6215 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpl_h1nt0y/python3-pil_12.2.0-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libasan8 amd64 16-20260425-1 [2888 kB] Fetched 2888 kB in 0s (135 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpasloca4o/libasan8_16-20260425-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libqt5help5 amd64 5.15.17-4+b1 [153 kB] Fetched 153 kB in 0s (3242 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpsrxr_1ge/libqt5help5_5.15.17-4+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libqt5xml5t64 amd64 5.15.17+dfsg-8 [119 kB] Fetched 119 kB in 0s (5716 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpg2urwwl3/libqt5xml5t64_5.15.17+dfsg-8_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 fftw-dev amd64 2.1.5-8 [290 kB] Fetched 290 kB in 0s (2606 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp21vnowz5/fftw-dev_2.1.5-8_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libibverbs1 amd64 63.0-1 [62.6 kB] Fetched 62.6 kB in 0s (1429 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpk0yf0r5q/libibverbs1_63.0-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libinput10 amd64 1.31.1-1 [159 kB] Fetched 159 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp25w8gaq1/libinput10_1.31.1-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libctf0 amd64 2.46-3 [92.2 kB] Fetched 92.2 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpvgfygk5h/libctf0_2.46-3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libnotify4 amd64 0.8.8-1+b1 [27.2 kB] Fetched 27.2 kB in 0s (1347 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpnr6ad8g_/libnotify4_0.8.8-1+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libssm-dev amd64 1.4.0-2+b4 [15.2 kB] Fetched 15.2 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpmd_1kaam/libssm-dev_1.4.0-2+b4_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libhwasan0 amd64 16-20260425-1 [1580 kB] Fetched 1580 kB in 0s (107 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp5dsrp3e0/libhwasan0_16-20260425-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 shared-mime-info amd64 2.4-5+b3 [758 kB] Fetched 758 kB in 0s (65.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp7z767sk5/shared-mime-info_2.4-5+b3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libattr1 amd64 1:2.5.2-4 [23.0 kB] Fetched 23.0 kB in 0s (0 B/s) dpkg-name: info: moved 'libattr1_1%3a2.5.2-4_amd64.deb' to '/srv/rebuilderd/tmp/tmp793qv4j1/libattr1_2.5.2-4_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libgdk-pixbuf2.0-common all 2.44.6+dfsg-2 [313 kB] Fetched 313 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpc_moxkll/libgdk-pixbuf2.0-common_2.44.6+dfsg-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libgdbm-compat4t64 amd64 1.26-1+b2 [52.0 kB] Fetched 52.0 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpzcokpijm/libgdbm-compat4t64_1.26-1+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3.13-minimal amd64 3.13.12-1 [2267 kB] Fetched 2267 kB in 0s (123 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp5wfs7phn/python3.13-minimal_3.13.12-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-pathspec all 1.0.4-1 [36.7 kB] Fetched 36.7 kB in 0s (1913 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp7qxzn4nr/python3-pathspec_1.0.4-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libpython3.13-minimal amd64 3.13.12-1 [866 kB] Fetched 866 kB in 0s (71.3 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpgs5f5cp4/libpython3.13-minimal_3.13.12-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libmagic1t64 amd64 1:5.46-5+b2 [109 kB] Fetched 109 kB in 0s (0 B/s) dpkg-name: info: moved 'libmagic1t64_1%3a5.46-5+b2_amd64.deb' to '/srv/rebuilderd/tmp/tmp5chvnf9x/libmagic1t64_5.46-5+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libgmp-dev amd64 2:6.3.0+dfsg-5+b2 [641 kB] Fetched 641 kB in 0s (61.9 MB/s) dpkg-name: info: moved 'libgmp-dev_2%3a6.3.0+dfsg-5+b2_amd64.deb' to '/srv/rebuilderd/tmp/tmpyw368xic/libgmp-dev_6.3.0+dfsg-5+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 diffutils amd64 1:3.12-1 [405 kB] Fetched 405 kB in 0s (0 B/s) dpkg-name: info: moved 'diffutils_1%3a3.12-1_amd64.deb' to '/srv/rebuilderd/tmp/tmpv2bjfpje/diffutils_3.12-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libpython3.14-dev amd64 3.14.5~rc1-1 [5445 kB] Fetched 5445 kB in 0s (23.8 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmphx0xnhoy/libpython3.14-dev_3.14.5~rc1-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 fonts-font-awesome all 5.0.10+really4.7.0~dfsg-4.1 [517 kB] Fetched 517 kB in 0s (49.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpcvzqt4at/fonts-font-awesome_5.0.10+really4.7.0~dfsg-4.1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxdmcp-dev amd64 1:1.1.5-2+b1 [44.0 kB] Fetched 44.0 kB in 0s (0 B/s) dpkg-name: info: moved 'libxdmcp-dev_1%3a1.1.5-2+b1_amd64.deb' to '/srv/rebuilderd/tmp/tmpj4o2_47v/libxdmcp-dev_1.1.5-2+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxml2-16 amd64 2.15.2+dfsg-0.1 [641 kB] Fetched 641 kB in 0s (58.9 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpzdxrqulk/libxml2-16_2.15.2+dfsg-0.1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 perl-modules-5.40 all 5.40.1-7 [3012 kB] Fetched 3012 kB in 0s (139 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpftrsh200/perl-modules-5.40_5.40.1-7_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libfreetype6 amd64 2.14.3+dfsg-1 [493 kB] Fetched 493 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpoppz5une/libfreetype6_2.14.3+dfsg-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxau6 amd64 1:1.0.11-1+b2 [20.7 kB] Fetched 20.7 kB in 0s (0 B/s) dpkg-name: info: moved 'libxau6_1%3a1.0.11-1+b2_amd64.deb' to '/srv/rebuilderd/tmp/tmpev0kvwpj/libxau6_1.0.11-1+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libccp4-data all 8.0.0-5 [62.5 kB] Fetched 62.5 kB in 0s (1298 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpn3wxdjw9/libccp4-data_8.0.0-5_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libglx-mesa0 amd64 26.0.6-1 [125 kB] Fetched 125 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp6d5jdpkh/libglx-mesa0_26.0.6-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 gcc-15-base amd64 15.2.0-17 [36.8 kB] Fetched 36.8 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpnx3abb7g/gcc-15-base_15.2.0-17_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libboost-timer1.90-dev amd64 1.90.0-6 [228 kB] Fetched 228 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpevq3yr0p/libboost-timer1.90-dev_1.90.0-6_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libfile-stripnondeterminism-perl all 1.15.0-1 [19.9 kB] Fetched 19.9 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpr_kaxhfy/libfile-stripnondeterminism-perl_1.15.0-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libpython3.13-dev amd64 3.13.12-1 [5298 kB] Fetched 5298 kB in 0s (161 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpz47_6lnj/libpython3.13-dev_3.13.12-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libngtcp2-16 amd64 1.22.1-1 [133 kB] Fetched 133 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpp67kj36e/libngtcp2-16_1.22.1-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libudev1 amd64 260.1-1 [133 kB] Fetched 133 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpwc6ietuw/libudev1_260.1-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libfftw3-bin amd64 3.3.10-2+b2 [51.0 kB] Fetched 51.0 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpsf8m2pau/libfftw3-bin_3.3.10-2+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 pkg-config amd64 2.5.1-4 [18.1 kB] Fetched 18.1 kB in 0s (871 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpv171ky87/pkg-config_2.5.1-4_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libwxgtk3.2-1t64 amd64 3.2.9+dfsg-1+b1 [4885 kB] Fetched 4885 kB in 0s (42.0 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpxr1ouijr/libwxgtk3.2-1t64_3.2.9+dfsg-1+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libgmp10 amd64 2:6.3.0+dfsg-5+b2 [560 kB] Fetched 560 kB in 0s (54.4 MB/s) dpkg-name: info: moved 'libgmp10_2%3a6.3.0+dfsg-5+b2_amd64.deb' to '/srv/rebuilderd/tmp/tmpm3mr8zec/libgmp10_6.3.0+dfsg-5+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libibumad3 amd64 63.0-1 [28.3 kB] Fetched 28.3 kB in 0s (1566 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp0hkbwqfd/libibumad3_63.0-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libpopt0 amd64 1.19+dfsg-2+b2 [43.8 kB] Fetched 43.8 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpx2u6kg5b/libpopt0_1.19+dfsg-2+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-lz4 amd64 4.4.5+dfsg-1 [26.0 kB] Fetched 26.0 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpnu87n495/python3-lz4_4.4.5+dfsg-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libhdf5-cpp-310 amd64 1.14.6+repack-2+b1 [130 kB] Fetched 130 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpwybz2oba/libhdf5-cpp-310_1.14.6+repack-2+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libwebpmux3 amd64 1.5.0-0.1+b2 [126 kB] Fetched 126 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpcgnepuyx/libwebpmux3_1.5.0-0.1+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libsasl2-2 amd64 2.1.28+dfsg1-11 [55.2 kB] Fetched 55.2 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpwm01ix6q/libsasl2-2_2.1.28+dfsg1-11_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxau-dev amd64 1:1.0.11-1+b2 [23.9 kB] Fetched 23.9 kB in 0s (0 B/s) dpkg-name: info: moved 'libxau-dev_1%3a1.0.11-1+b2_amd64.deb' to '/srv/rebuilderd/tmp/tmpht_w2f2t/libxau-dev_1.0.11-1+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libsframe3 amd64 2.46-3 [84.7 kB] Fetched 84.7 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp265fzaxu/libsframe3_2.46-3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libann-cctbx-dev amd64 1.1.2+doc-9+b1 [44.6 kB] Fetched 44.6 kB in 0s (861 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_olkeftt/libann-cctbx-dev_1.1.2+doc-9+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libnghttp2-14 amd64 1.69.0-1 [89.0 kB] Fetched 89.0 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp7qn6e6gf/libnghttp2-14_1.69.0-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 base-passwd amd64 3.6.8 [54.6 kB] Fetched 54.6 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpo2oo46nx/base-passwd_3.6.8_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 openssl-provider-legacy amd64 3.6.2-1 [316 kB] Fetched 316 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_pj4pjb6/openssl-provider-legacy_3.6.2-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 python3.14-minimal amd64 3.14.5~rc1-1 [2410 kB] Fetched 2410 kB in 0s (16.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpdbl9mvbl/python3.14-minimal_3.14.5~rc1-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libopenjp2-7 amd64 2.5.4-1.1 [205 kB] Fetched 205 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpftt9qkik/libopenjp2-7_2.5.4-1.1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-editables all 0.5-3 [14.9 kB] Fetched 14.9 kB in 0s (1145 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpemjxuheb/python3-editables_0.5-3_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 gettext-base amd64 0.23.2-2 [242 kB] Fetched 242 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpdhw3thm5/gettext-base_0.23.2-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 sgml-base all 1.31+nmu1 [10.9 kB] Fetched 10.9 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpdnkapa8a/sgml-base_1.31+nmu1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-requests all 2.32.5+dfsg-1 [72.4 kB] Fetched 72.4 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpdagq7whs/python3-requests_2.32.5+dfsg-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libpython3-dev amd64 3.13.9-3+b1 [8588 B] Fetched 8588 B in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmppnt_vbav/libpython3-dev_3.13.9-3+b1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libglew2.3 amd64 2.3.1-6 [166 kB] Fetched 166 kB in 0s (2727 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_m4tblj_/libglew2.3_2.3.1-6_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 autotools-dev all 20240727.1+nmu1 [60.0 kB] Fetched 60.0 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp3yi_if2d/autotools-dev_20240727.1+nmu1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-flexparser all 0.4-2 [43.1 kB] Fetched 43.1 kB in 0s (1721 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpi4zsbdiq/python3-flexparser_0.4-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libeigen3-dev all 3.4.0-5 [1034 kB] Fetched 1034 kB in 0s (84.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp1pbu78ka/libeigen3-dev_3.4.0-5_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libogg0 amd64 1.3.6-2+b1 [24.0 kB] Fetched 24.0 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpvdp3otq_/libogg0_1.3.6-2+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libasound2t64 amd64 1.2.15.3-1+b1 [394 kB] Fetched 394 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpt2k3e6bs/libasound2t64_1.2.15.3-1+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libglx-dev amd64 1.7.0-3+b1 [15.0 kB] Fetched 15.0 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp1ht9wh9m/libglx-dev_1.7.0-3+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-brotli amd64 1.2.0-3 [336 kB] Fetched 336 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp2d5vh5bg/python3-brotli_1.2.0-3_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libgssrpc4t64 amd64 1.22.1-2+b1 [58.1 kB] Fetched 58.1 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpbfn1mhh9/libgssrpc4t64_1.22.1-2+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libevent-2.1-7t64 amd64 2.1.12-stable-10+b2 [184 kB] Fetched 184 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpd6xgvtbf/libevent-2.1-7t64_2.1.12-stable-10+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libfftw3-long3 amd64 3.3.10-2+b2 [346 kB] Fetched 346 kB in 0s (10.4 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp3w9k3lk8/libfftw3-long3_3.3.10-2+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-sympy all 1.14.0-3 [4226 kB] Fetched 4226 kB in 0s (154 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpaeq84c34/python3-sympy_1.14.0-3_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libsensors-config all 1:3.6.2-2 [16.2 kB] Fetched 16.2 kB in 0s (0 B/s) dpkg-name: info: moved 'libsensors-config_1%3a3.6.2-2_all.deb' to '/srv/rebuilderd/tmp/tmpqbmjf8yv/libsensors-config_3.6.2-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxkbcommon-x11-0 amd64 1.13.1-1 [21.0 kB] Fetched 21.0 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp5k_o821m/libxkbcommon-x11-0_1.13.1-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-all-dev amd64 3.13.9-3+b1 [1084 B] Fetched 1084 B in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpb54fan95/python3-all-dev_3.13.9-3+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libnghttp3-dev amd64 1.15.0-1 [94.5 kB] Fetched 94.5 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp3c5ieko_/libnghttp3-dev_1.15.0-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 gtk-update-icon-cache amd64 4.22.3+ds-1 [41.0 kB] Fetched 41.0 kB in 0s (1442 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpqbj3nefy/gtk-update-icon-cache_4.22.3+ds-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libbsd0 amd64 0.12.2-2+b2 [132 kB] Fetched 132 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp0mj_hn1t/libbsd0_0.12.2-2+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 systemd amd64 260.1-1 [3299 kB] Fetched 3299 kB in 0s (142 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp9x7d4g8c/systemd_260.1-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 xml-core all 0.20 [20.0 kB] Fetched 20.0 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp6suph30y/xml-core_0.20_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-certifi all 2026.4.22+ds-1 [9684 B] Fetched 9684 B in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp1y759txr/python3-certifi_2026.4.22+ds-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libboost-exception1.90-dev amd64 1.90.0-6 [222 kB] Fetched 222 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpr2neeewo/libboost-exception1.90-dev_1.90.0-6_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxcursor1 amd64 1:1.2.3-1+b2 [40.3 kB] Fetched 40.3 kB in 0s (0 B/s) dpkg-name: info: moved 'libxcursor1_1%3a1.2.3-1+b2_amd64.deb' to '/srv/rebuilderd/tmp/tmpaqru_ejo/libxcursor1_1.2.3-1+b2_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 autoconf all 2.72-6 [494 kB] Fetched 494 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpfkwggwkw/autoconf_2.72-6_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libasound2-data all 1.2.15.3-1 [21.2 kB] Fetched 21.2 kB in 0s (2115 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmphqrr08yr/libasound2-data_1.2.15.3-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 liblcms2-2 amd64 2.19.1-1 [164 kB] Fetched 164 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp8ycva9yg/liblcms2-2_2.19.1-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-zopfli amd64 0.4.1-1 [10.7 kB] Fetched 10.7 kB in 0s (771 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpw5hm7ock/python3-zopfli_0.4.1-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libboost-numpy1.90-dev amd64 1.90.0-6 [242 kB] Fetched 242 kB in 0s (5296 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpkykzz6f8/libboost-numpy1.90-dev_1.90.0-6_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libitm1 amd64 16-20260425-1 [27.0 kB] Fetched 27.0 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpemb9tngf/libitm1_16-20260425-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxcomposite1 amd64 1:0.4.6-1+b2 [16.6 kB] Fetched 16.6 kB in 0s (0 B/s) dpkg-name: info: moved 'libxcomposite1_1%3a0.4.6-1+b2_amd64.deb' to '/srv/rebuilderd/tmp/tmp4dco1118/libxcomposite1_0.4.6-1+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libngtcp2-dev amd64 1.22.1-1 [192 kB] Fetched 192 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpl8197wjp/libngtcp2-dev_1.22.1-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Fetched 104 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmphosrqzrm/libarchive-zip-perl_1.68-1_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libicu78 amd64 78.3-1 [10.0 MB] Fetched 10.0 MB in 0s (24.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpv1ucwyh4/libicu78_78.3-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libucc1 amd64 1.7.0~rc1-1 [329 kB] Fetched 329 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpgoo_7fei/libucc1_1.7.0~rc1-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libzopfli1 amd64 1.0.3-3 [106 kB] Fetched 106 kB in 0s (2750 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp8ruo13ps/libzopfli1_1.0.3-3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libcloudproviders0 amd64 0.4.0-2+b1 [29.2 kB] Fetched 29.2 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpmvwv81f9/libcloudproviders0_0.4.0-2+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-pyproject-hooks all 1.2.0-1 [11.7 kB] Fetched 11.7 kB in 0s (487 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp02s2knbj/python3-pyproject-hooks_1.2.0-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libqt5widgets5t64 amd64 5.15.17+dfsg-8 [2420 kB] Fetched 2420 kB in 0s (128 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpqf_f49kb/libqt5widgets5t64_5.15.17+dfsg-8_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-charset-normalizer amd64 3.4.7-1 [245 kB] Fetched 245 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpkxix7_9j/python3-charset-normalizer_3.4.7-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libde265-0 amd64 1.0.18-1 [187 kB] Fetched 187 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpemh5ymnv/libde265-0_1.0.18-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libkadm5clnt-mit12 amd64 1.22.1-2+b1 [40.2 kB] Fetched 40.2 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp9u1rqn8p/libkadm5clnt-mit12_1.22.1-2+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-cairo amd64 1.27.0-2+b1 [132 kB] Fetched 132 kB in 0s (4020 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpo7ifffyh/python3-cairo_1.27.0-2+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 hostname amd64 3.25 [11.0 kB] Fetched 11.0 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpz9uvnlwa/hostname_3.25_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libc6 amd64 2.42-15 [1794 kB] Fetched 1794 kB in 0s (112 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpx82wcvor/libc6_2.42-15_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libpulse0 amd64 17.0+dfsg1-2.1+b1 [272 kB] Fetched 272 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpfpyu3sm8/libpulse0_17.0+dfsg1-2.1+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxcb-present0 amd64 1.17.0-2+b2 [106 kB] Fetched 106 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpshd8xf_c/libxcb-present0_1.17.0-2+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 man-db amd64 2.13.1-1 [1469 kB] Fetched 1469 kB in 0s (103 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpb_nq6wbm/man-db_2.13.1-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libpng16-16t64 amd64 1.6.58-1 [289 kB] Fetched 289 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp5d9s4ofa/libpng16-16t64_1.6.58-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libjq1 amd64 1.8.1-5 [166 kB] Fetched 166 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp4rv5_rok/libjq1_1.8.1-5_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libcairo-gobject2 amd64 1.18.4-3+b1 [129 kB] Fetched 129 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp_jtn6if8/libcairo-gobject2_1.18.4-3+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libdb5.3t64 amd64 5.3.28+dfsg2-11+b1 [709 kB] Fetched 709 kB in 0s (64.8 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp4h36vgs_/libdb5.3t64_5.3.28+dfsg2-11+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libuuid1 amd64 2.42-6 [33.1 kB] Fetched 33.1 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpckw80t_z/libuuid1_2.42-6_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libseccomp2 amd64 2.6.0-2+b1 [52.2 kB] Fetched 52.2 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpk715d9cn/libseccomp2_2.6.0-2+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxfixes3 amd64 1:6.0.0-2+b5 [20.3 kB] Fetched 20.3 kB in 0s (0 B/s) dpkg-name: info: moved 'libxfixes3_1%3a6.0.0-2+b5_amd64.deb' to '/srv/rebuilderd/tmp/tmpx73ixzz9/libxfixes3_6.0.0-2+b5_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libboost-atomic1.90-dev amd64 1.90.0-6 [228 kB] Fetched 228 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpccr5o_z1/libboost-atomic1.90-dev_1.90.0-6_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 cpp-15 amd64 15.2.0-17 [1276 B] Fetched 1276 B in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpjfvpymyd/cpp-15_15.2.0-17_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libmd4c0 amd64 0.5.2-2+b2 [49.1 kB] Fetched 49.1 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp1lakpjrl/libmd4c0_0.5.2-2+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxdmcp6 amd64 1:1.1.5-2+b1 [28.2 kB] Fetched 28.2 kB in 0s (0 B/s) dpkg-name: info: moved 'libxdmcp6_1%3a1.1.5-2+b1_amd64.deb' to '/srv/rebuilderd/tmp/tmp75z3puxi/libxdmcp6_1.1.5-2+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libssm2 amd64 1.4.0-2+b4 [83.8 kB] Fetched 83.8 kB in 0s (2393 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpdy_kqw1j/libssm2_1.4.0-2+b4_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libwxgtk-gl3.2-1t64 amd64 3.2.9+dfsg-1+b1 [87.5 kB] Fetched 87.5 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpk5c4iwh1/libwxgtk-gl3.2-1t64_3.2.9+dfsg-1+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libgdbm6t64 amd64 1.26-1+b2 [77.7 kB] Fetched 77.7 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpbz0gzlfp/libgdbm6t64_1.26-1+b2_amd64.deb' Downloading dependency 505 of 688: libamd-comgr3:amd64=7.0.2+dfsg-3 Downloading dependency 506 of 688: libaec-dev:amd64=1.1.6-1 Downloading dependency 507 of 688: libmount1:amd64=2.42-6 Downloading dependency 508 of 688: python3-matplotlib:amd64=3.10.7+dfsg1-3 Downloading dependency 509 of 688: python3-pil:amd64=12.2.0-1 Downloading dependency 510 of 688: libasan8:amd64=16-20260425-1 Downloading dependency 511 of 688: libqt5help5:amd64=5.15.17-4+b1 Downloading dependency 512 of 688: libqt5xml5t64:amd64=5.15.17+dfsg-8 Downloading dependency 513 of 688: fftw-dev:amd64=2.1.5-8 Downloading dependency 514 of 688: libibverbs1:amd64=63.0-1 Downloading dependency 515 of 688: libinput10:amd64=1.31.1-1 Downloading dependency 516 of 688: libctf0:amd64=2.46-3 Downloading dependency 517 of 688: libnotify4:amd64=0.8.8-1+b1 Downloading dependency 518 of 688: libssm-dev:amd64=1.4.0-2+b4 Downloading dependency 519 of 688: libhwasan0:amd64=16-20260425-1 Downloading dependency 520 of 688: shared-mime-info:amd64=2.4-5+b3 Downloading dependency 521 of 688: libattr1:amd64=1:2.5.2-4 Downloading dependency 522 of 688: libgdk-pixbuf2.0-common:amd64=2.44.6+dfsg-2 Downloading dependency 523 of 688: libgdbm-compat4t64:amd64=1.26-1+b2 Downloading dependency 524 of 688: python3.13-minimal:amd64=3.13.12-1 Downloading dependency 525 of 688: python3-pathspec:amd64=1.0.4-1 Downloading dependency 526 of 688: libpython3.13-minimal:amd64=3.13.12-1 Downloading dependency 527 of 688: libmagic1t64:amd64=1:5.46-5+b2 Downloading dependency 528 of 688: libgmp-dev:amd64=2:6.3.0+dfsg-5+b2 Downloading dependency 529 of 688: diffutils:amd64=1:3.12-1 Downloading dependency 530 of 688: libpython3.14-dev:amd64=3.14.5~rc1-1 Downloading dependency 531 of 688: fonts-font-awesome:amd64=5.0.10+really4.7.0~dfsg-4.1 Downloading dependency 532 of 688: libxdmcp-dev:amd64=1:1.1.5-2+b1 Downloading dependency 533 of 688: libxml2-16:amd64=2.15.2+dfsg-0.1 Downloading dependency 534 of 688: perl-modules-5.40:amd64=5.40.1-7 Downloading dependency 535 of 688: libfreetype6:amd64=2.14.3+dfsg-1 Downloading dependency 536 of 688: libxau6:amd64=1:1.0.11-1+b2 Downloading dependency 537 of 688: libccp4-data:amd64=8.0.0-5 Downloading dependency 538 of 688: libglx-mesa0:amd64=26.0.6-1 Downloading dependency 539 of 688: gcc-15-base:amd64=15.2.0-17 Downloading dependency 540 of 688: libboost-timer1.90-dev:amd64=1.90.0-6 Downloading dependency 541 of 688: libfile-stripnondeterminism-perl:amd64=1.15.0-1 Downloading dependency 542 of 688: libpython3.13-dev:amd64=3.13.12-1 Downloading dependency 543 of 688: libngtcp2-16:amd64=1.22.1-1 Downloading dependency 544 of 688: libudev1:amd64=260.1-1 Downloading dependency 545 of 688: libfftw3-bin:amd64=3.3.10-2+b2 Downloading dependency 546 of 688: pkg-config:amd64=2.5.1-4 Downloading dependency 547 of 688: libwxgtk3.2-1t64:amd64=3.2.9+dfsg-1+b1 Downloading dependency 548 of 688: libgmp10:amd64=2:6.3.0+dfsg-5+b2 Downloading dependency 549 of 688: libibumad3:amd64=63.0-1 Downloading dependency 550 of 688: libpopt0:amd64=1.19+dfsg-2+b2 Downloading dependency 551 of 688: python3-lz4:amd64=4.4.5+dfsg-1 Downloading dependency 552 of 688: libhdf5-cpp-310:amd64=1.14.6+repack-2+b1 Downloading dependency 553 of 688: libwebpmux3:amd64=1.5.0-0.1+b2 Downloading dependency 554 of 688: libsasl2-2:amd64=2.1.28+dfsg1-11 Downloading dependency 555 of 688: libxau-dev:amd64=1:1.0.11-1+b2 Downloading dependency 556 of 688: libsframe3:amd64=2.46-3 Downloading dependency 557 of 688: libann-cctbx-dev:amd64=1.1.2+doc-9+b1 Downloading dependency 558 of 688: libnghttp2-14:amd64=1.69.0-1 Downloading dependency 559 of 688: base-passwd:amd64=3.6.8 Downloading dependency 560 of 688: openssl-provider-legacy:amd64=3.6.2-1 Downloading dependency 561 of 688: python3.14-minimal:amd64=3.14.5~rc1-1 Downloading dependency 562 of 688: libopenjp2-7:amd64=2.5.4-1.1 Downloading dependency 563 of 688: python3-editables:amd64=0.5-3 Downloading dependency 564 of 688: gettext-base:amd64=0.23.2-2 Downloading dependency 565 of 688: sgml-base:amd64=1.31+nmu1 Downloading dependency 566 of 688: python3-requests:amd64=2.32.5+dfsg-1 Downloading dependency 567 of 688: libpython3-dev:amd64=3.13.9-3+b1 Downloading dependency 568 of 688: libglew2.3:amd64=2.3.1-6 Downloading dependency 569 of 688: autotools-dev:amd64=20240727.1+nmu1 Downloading dependency 570 of 688: python3-flexparser:amd64=0.4-2 Downloading dependency 571 of 688: libeigen3-dev:amd64=3.4.0-5 Downloading dependency 572 of 688: libogg0:amd64=1.3.6-2+b1 Downloading dependency 573 of 688: libasound2t64:amd64=1.2.15.3-1+b1 Downloading dependency 574 of 688: libglx-dev:amd64=1.7.0-3+b1 Downloading dependency 575 of 688: python3-brotli:amd64=1.2.0-3 Downloading dependency 576 of 688: libgssrpc4t64:amd64=1.22.1-2+b1 Downloading dependency 577 of 688: libevent-2.1-7t64:amd64=2.1.12-stable-10+b2 Downloading dependency 578 of 688: libfftw3-long3:amd64=3.3.10-2+b2 Downloading dependency 579 of 688: python3-sympy:amd64=1.14.0-3 Downloading dependency 580 of 688: libsensors-config:amd64=1:3.6.2-2 Downloading dependency 581 of 688: libxkbcommon-x11-0:amd64=1.13.1-1 Downloading dependency 582 of 688: python3-all-dev:amd64=3.13.9-3+b1 Downloading dependency 583 of 688: libnghttp3-dev:amd64=1.15.0-1 Downloading dependency 584 of 688: gtk-update-icon-cache:amd64=4.22.3+ds-1 Downloading dependency 585 of 688: libbsd0:amd64=0.12.2-2+b2 Downloading dependency 586 of 688: systemd:amd64=260.1-1 Downloading dependency 587 of 688: xml-core:amd64=0.20 Downloading dependency 588 of 688: python3-certifi:amd64=2026.4.22+ds-1 Downloading dependency 589 of 688: libboost-exception1.90-dev:amd64=1.90.0-6 Downloading dependency 590 of 688: libxcursor1:amd64=1:1.2.3-1+b2 Downloading dependency 591 of 688: autoconf:amd64=2.72-6 Downloading dependency 592 of 688: libasound2-data:amd64=1.2.15.3-1 Downloading dependency 593 of 688: liblcms2-2:amd64=2.19.1-1 Downloading dependency 594 of 688: python3-zopfli:amd64=0.4.1-1 Downloading dependency 595 of 688: libboost-numpy1.90-dev:amd64=1.90.0-6 Downloading dependency 596 of 688: libitm1:amd64=16-20260425-1 Downloading dependency 597 of 688: libxcomposite1:amd64=1:0.4.6-1+b2 Downloading dependency 598 of 688: libngtcp2-dev:amd64=1.22.1-1 Downloading dependency 599 of 688: libarchive-zip-perl:amd64=1.68-1 Downloading dependency 600 of 688: libicu78:amd64=78.3-1 Downloading dependency 601 of 688: libucc1:amd64=1.7.0~rc1-1 Downloading dependency 602 of 688: libzopfli1:amd64=1.0.3-3 Downloading dependency 603 of 688: libcloudproviders0:amd64=0.4.0-2+b1 Downloading dependency 604 of 688: python3-pyproject-hooks:amd64=1.2.0-1 Downloading dependency 605 of 688: libqt5widgets5t64:amd64=5.15.17+dfsg-8 Downloading dependency 606 of 688: python3-charset-normalizer:amd64=3.4.7-1 Downloading dependency 607 of 688: libde265-0:amd64=1.0.18-1 Downloading dependency 608 of 688: libkadm5clnt-mit12:amd64=1.22.1-2+b1 Downloading dependency 609 of 688: python3-cairo:amd64=1.27.0-2+b1 Downloading dependency 610 of 688: hostname:amd64=3.25 Downloading dependency 611 of 688: libc6:amd64=2.42-15 Downloading dependency 612 of 688: libpulse0:amd64=17.0+dfsg1-2.1+b1 Downloading dependency 613 of 688: libxcb-present0:amd64=1.17.0-2+b2 Downloading dependency 614 of 688: man-db:amd64=2.13.1-1 Downloading dependency 615 of 688: libpng16-16t64:amd64=1.6.58-1 Downloading dependency 616 of 688: libjq1:amd64=1.8.1-5 Downloading dependency 617 of 688: libcairo-gobject2:amd64=1.18.4-3+b1 Downloading dependency 618 of 688: libdb5.3t64:amd64=5.3.28+dfsg2-11+b1 Downloading dependency 619 of 688: libuuid1:amd64=2.42-6 Downloading dependency 620 of 688: libseccomp2:amd64=2.6.0-2+b1 Downloading dependency 621 of 688: libxfixes3:amd64=1:6.0.0-2+b5 Downloading dependency 622 of 688: libboost-atomic1.90-dev:amd64=1.90.0-6 Downloading dependency 623 of 688: cpp-15:amd64=15.2.0-17 Downloading dependency 624 of 688: libmd4c0:amd64=0.5.2-2+b2 Downloading dependency 625 of 688: libxdmcp6:amd64=1:1.1.5-2+b1 Downloading dependency 626 of 688: libssm2:amd64=1.4.0-2+b4 Downloading dependency 627 of 688: libwxgtk-gl3.2-1t64:amd64=3.2.9+dfsg-1+b1 Downloading dependency 628 of 688: libgdbm6t64:amd64=1.26-1+b2 Downloading dependency 629 of 688: python3-rlpycairo:amd64=0.3.0-4Get:1 http://deb.debian.org/debian unstable/main amd64 python3-rlpycairo all 0.3.0-4 [10.1 kB] Fetched 10.1 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpzg6pzlqb/python3-rlpycairo_0.3.0-4_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libbrotli-dev amd64 1.2.0-3 [324 kB] Fetched 324 kB in 0s (32.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpu52wo6qt/libbrotli-dev_1.2.0-3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libdecor-0-0 amd64 0.2.5-1+b1 [15.8 kB] Fetched 15.8 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpxn17hdmr/libdecor-0-0_0.2.5-1+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libwayland-cursor0 amd64 1.24.0-2+b2 [12.3 kB] Fetched 12.3 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp1hy2krn6/libwayland-cursor0_1.24.0-2+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 rpcsvc-proto amd64 1.4.3-1 [63.3 kB] Fetched 63.3 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp39bha6qn/rpcsvc-proto_1.4.3-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libsharpyuv-dev amd64 1.5.0-0.1+b2 [119 kB] Fetched 119 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpi7yveek2/libsharpyuv-dev_1.5.0-0.1+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxcb-sync1 amd64 1.17.0-2+b2 [109 kB] Fetched 109 kB in 0s (10.8 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpaqc010xv/libxcb-sync1_1.17.0-2+b2_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libcurl4t64 amd64 8.20.0-1 [409 kB] Fetched 409 kB in 0s (8320 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp940mv3vz/libcurl4t64_8.20.0-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libx11-data all 2:1.8.13-1 [346 kB] Fetched 346 kB in 0s (0 B/s) dpkg-name: info: moved 'libx11-data_2%3a1.8.13-1_all.deb' to '/srv/rebuilderd/tmp/tmpqac1j4sh/libx11-data_1.8.13-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 bzip2 amd64 1.0.8-6+b2 [40.4 kB] Fetched 40.4 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpna12r86_/bzip2_1.0.8-6+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libice6 amd64 2:1.1.1-1+b2 [66.8 kB] Fetched 66.8 kB in 0s (0 B/s) dpkg-name: info: moved 'libice6_2%3a1.1.1-1+b2_amd64.deb' to '/srv/rebuilderd/tmp/tmpnp37eetd/libice6_1.1.1-1+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libboost-date-time1.90-dev amd64 1.90.0-6 [231 kB] Fetched 231 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp93mxevy8/libboost-date-time1.90-dev_1.90.0-6_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libcolord2 amd64 1.4.8-3 [141 kB] Fetched 141 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmphi1me2if/libcolord2_1.4.8-3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libaom3 amd64 3.13.1-2+b1 [1904 kB] Fetched 1904 kB in 0s (116 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpn26hbfg0/libaom3_3.13.1-2+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libwebpdecoder3 amd64 1.5.0-0.1+b2 [222 kB] Fetched 222 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpf2jn9g1v/libwebpdecoder3_1.5.0-0.1+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 x11-common all 1:7.7+26 [217 kB] Fetched 217 kB in 0s (0 B/s) dpkg-name: info: moved 'x11-common_1%3a7.7+26_all.deb' to '/srv/rebuilderd/tmp/tmp4wth9h19/x11-common_7.7+26_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libgssapi-krb5-2 amd64 1.22.1-2+b1 [137 kB] Fetched 137 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp8c4w97c4/libgssapi-krb5-2_1.22.1-2+b1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libpython3.14 amd64 3.14.5~rc1-1 [2372 kB] Fetched 2372 kB in 0s (9772 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpsy_tfs1y/libpython3.14_3.14.5~rc1-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libboost-dev amd64 1.90.0.2 [3064 B] Fetched 3064 B in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpmuq5rjdv/libboost-dev_1.90.0.2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libgtk-3-common all 3.24.52-1 [4929 kB] Fetched 4929 kB in 0s (160 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpin7b8ch7/libgtk-3-common_3.24.52-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-iniconfig all 2.1.0-2 [7540 B] Fetched 7540 B in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpzmaeo9ni/python3-iniconfig_2.1.0-2_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-packaging all 26.0-1 [64.3 kB] Fetched 64.3 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp46_eqb6o/python3-packaging_26.0-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 procps amd64 2:4.0.4-9+b2 [880 kB] Fetched 880 kB in 0s (73.9 MB/s) dpkg-name: info: moved 'procps_2%3a4.0.4-9+b2_amd64.deb' to '/srv/rebuilderd/tmp/tmp7rf79b0i/procps_4.0.4-9+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 xtrans-dev all 1.6.0-1 [93.5 kB] Fetched 93.5 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpkagz0r6x/xtrans-dev_1.6.0-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-pyqt5.sip amd64 12.18.0-1 [74.6 kB] Fetched 74.6 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmptrx9ut9d/python3-pyqt5.sip_12.18.0-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libxcb-render0 amd64 1.17.0-2+b2 [115 kB] Fetched 115 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp1sknsn0k/libxcb-render0_1.17.0-2+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libboost-graph1.90.0 amd64 1.90.0-6 [355 kB] Fetched 355 kB in 0s (7487 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpye3ewwye/libboost-graph1.90.0_1.90.0-6_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libboost-timer1.90.0 amd64 1.90.0-6 [226 kB] Fetched 226 kB in 0s (662 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpitn1jmqf/libboost-timer1.90.0_1.90.0-6_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libgcrypt20 amd64 1.12.2-1 [903 kB] Fetched 903 kB in 0s (51.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp2gzmxd69/libgcrypt20_1.12.2-1_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libc-bin amd64 2.42-15 [621 kB] Fetched 621 kB in 0s (59.7 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpkr8ldwm1/libc-bin_2.42-15_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 bash amd64 5.3-3 [1559 kB] Fetched 1559 kB in 0s (98.1 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpleohcdov/bash_5.3-3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libpython3-stdlib amd64 3.13.9-3+b1 [8348 B] Fetched 8348 B in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpijgzxxfg/libpython3-stdlib_3.13.9-3+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.2-3 [918 kB] Fetched 918 kB in 0s (77.6 MB/s) dpkg-name: info: moved 'zlib1g-dev_1%3a1.3.dfsg+really1.3.2-3_amd64.deb' to '/srv/rebuilderd/tmp/tmpjly156_1/zlib1g-dev_1.3.dfsg+really1.3.2-3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-autocommand all 2.2.2-4 [13.7 kB] Fetched 13.7 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpp00pqokf/python3-autocommand_2.2.2-4_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 liblapack3 amd64 3.12.1-7+b2 [2546 kB] Fetched 2546 kB in 0s (129 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp0pes538v/liblapack3_3.12.1-7+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libboost-timer-dev amd64 1.90.0.2 [2980 B] Fetched 2980 B in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpd3dgqake/libboost-timer-dev_1.90.0.2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libglvnd0 amd64 1.7.0-3+b1 [54.3 kB] Fetched 54.3 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp021ep6ye/libglvnd0_1.7.0-3+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 g++-15-x86-64-linux-gnu amd64 15.2.0-17 [13.2 MB] Fetched 13.2 MB in 0s (186 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp8irxs2_n/g++-15-x86-64-linux-gnu_15.2.0-17_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libpciaccess0 amd64 0.17-3+b4 [52.1 kB] Fetched 52.1 kB in 0s (5153 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpqft7pvkh/libpciaccess0_0.17-3+b4_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libhdf5-310 amd64 1.14.6+repack-2+b1 [1357 kB] Fetched 1357 kB in 0s (98.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpbiy96u2r/libhdf5-310_1.14.6+repack-2+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libboost-chrono1.90-dev amd64 1.90.0-6 [237 kB] Fetched 237 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpkh00rhf1/libboost-chrono1.90-dev_1.90.0-6_amd64.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libssh2-1t64 amd64 1.11.1-2 [244 kB] Fetched 244 kB in 0s (5273 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpgo04pt08/libssh2-1t64_1.11.1-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 findutils amd64 4.10.0-4 [700 kB] Fetched 700 kB in 0s (65.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpp7ce4i0p/findutils_4.10.0-4_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-opengl all 3.1.10+dfsg-1 [624 kB] Fetched 624 kB in 0s (8528 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp1668cs3h/python3-opengl_3.1.10+dfsg-1_all.deb' Get:1 http://snapshot.debian.org/archive/debian/20260506T205057Z unstable/main amd64 libpython3.14-stdlib amd64 3.14.5~rc1-1 [2268 kB] Fetched 2268 kB in 0s (114 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpvbtzmtbh/libpython3.14-stdlib_3.14.5~rc1-1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-pyqt5.qtopengl amd64 5.15.11+dfsg-4 [214 kB] Fetched 214 kB in 0s (4433 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmppwd1l3nj/python3-pyqt5.qtopengl_5.15.11+dfsg-4_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 tar amd64 1.35+dfsg-4 [817 kB] Fetched 817 kB in 0s (72.6 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmplbezhekn/tar_1.35+dfsg-4_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libpam-runtime all 1.7.0-5 [249 kB] Fetched 249 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp64yqis_x/libpam-runtime_1.7.0-5_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg1-11 [17.2 kB] Fetched 17.2 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpcfgizi_j/libsasl2-modules-db_2.1.28+dfsg1-11_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 pkgconf amd64 2.5.1-4 [33.6 kB] Fetched 33.6 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp3s7uaaes/pkgconf_2.5.1-4_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-platformdirs all 4.9.6-1 [17.3 kB] Fetched 17.3 kB in 0s (1550 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpqckx9bg6/python3-platformdirs_4.9.6-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libevdev2 amd64 1.13.6+dfsg-2 [31.9 kB] Fetched 31.9 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp9s0a2il1/libevdev2_1.13.6+dfsg-2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 liblz4-dev amd64 1.10.0-10 [94.9 kB] Fetched 94.9 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpf17_1e4l/liblz4-dev_1.10.0-10_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libbrotli1 amd64 1.2.0-3 [320 kB] Fetched 320 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmphbs6gr4u/libbrotli1_1.2.0-3_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libdeflate0 amd64 1.23-2+b2 [48.3 kB] Fetched 48.3 kB in 0s (4630 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmppvfbkrxu/libdeflate0_1.23-2+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libwebp-dev amd64 1.5.0-0.1+b2 [471 kB] Fetched 471 kB in 0s (46.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp2rb35cq3/libwebp-dev_1.5.0-0.1+b2_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 x11proto-dev all 2025.1-1 [605 kB] Fetched 605 kB in 0s (58.5 MB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp5tgl0jqf/x11proto-dev_2025.1-1_all.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 libdatrie1 amd64 0.2.14-1+b1 [39.5 kB] Fetched 39.5 kB in 0s (3730 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpilroh6qe/libdatrie1_0.2.14-1+b1_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 dash amd64 0.5.12-12 [98.5 kB] Fetched 98.5 kB in 0s (0 B/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmpibyspthu/dash_0.5.12-12_amd64.deb' Get:1 http://deb.debian.org/debian unstable/main amd64 python3-attr all 26.1.0-1 [72.2 kB] Fetched 72.2 kB in 0s (7216 kB/s) dpkg-name: warning: skipping '/srv/rebuilderd/tmp/tmp5xvlxjj0/python3-attr_26.1.0-1_all.deb' dpkg-buildpackage: info: source package debootsnap-dummy dpkg-buildpackage: info: source version 1.0 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Equivs Dummy Package Generator dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean dh_clean debian/rules binary dh binary dh_update_autotools_config dh_autoreconf create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install --destdir=debian/debootsnap-dummy/ dh_install dh_installdocs dh_installchangelogs dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms dh_missing dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'debootsnap-dummy' in '../debootsnap-dummy_1.0_all.deb'. dpkg-genbuildinfo --build=binary -O../debootsnap-dummy_1.0_amd64.buildinfo dpkg-genchanges --build=binary -O../debootsnap-dummy_1.0_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) The package has been created. Attention, the package has been created in the /srv/rebuilderd/tmp/tmp5ltdqhel/cache directory, not in ".." as indicated by the message above! I: automatically chosen mode: unshare I: chroot architecture amd64 is equal to the host's architecture I: using /srv/rebuilderd/tmp/mmdebstrap.PcrMKN0hxx as tempdir I: running --setup-hook directly: /usr/share/mmdebstrap/hooks/maybe-merged-usr/setup00.sh /srv/rebuilderd/tmp/mmdebstrap.PcrMKN0hxx 127.0.0.1 - - [16/May/2026 13:06:30] code 404, message File not found 127.0.0.1 - - [16/May/2026 13:06:30] "GET /./InRelease HTTP/1.1" 404 - Ign:1 http://localhost:44001 ./ InRelease 127.0.0.1 - - [16/May/2026 13:06:30] "GET /./Release HTTP/1.1" 200 - Get:2 http://localhost:44001 ./ Release [462 B] 127.0.0.1 - - [16/May/2026 13:06:30] code 404, message File not found 127.0.0.1 - - [16/May/2026 13:06:30] "GET /./Release.gpg HTTP/1.1" 404 - Ign:3 http://localhost:44001 ./ Release.gpg 127.0.0.1 - - [16/May/2026 13:06:30] "GET /./Packages HTTP/1.1" 200 - Get:4 http://localhost:44001 ./ Packages [857 kB] Fetched 857 kB in 0s (46.0 MB/s) Reading package lists... usr-is-merged found but not real -- not running merged-usr setup hook I: skipping apt-get update because it was already run I: downloading packages with apt... 127.0.0.1 - - [16/May/2026 13:06:30] "GET /./gcc-16-base_16-20260425-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:30] "GET /./libc-gconv-modules-extra_2.42-15_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:30] "GET /./libc6_2.42-15_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:30] "GET /./libgcc-s1_16-20260425-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:30] "GET /./mawk_1.3.4.20260302-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:30] "GET /./base-files_14_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:30] "GET /./libtinfo6_6.6%2b20251231-1%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:30] "GET /./debianutils_5.23.2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:30] "GET /./bash_5.3-3_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:30] "GET /./libacl1_2.3.2-3_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:30] "GET /./libattr1_2.5.2-4_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:30] "GET /./libgmp10_6.3.0%2bdfsg-5%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:30] "GET /./libpcre2-8-0_10.46-1%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:30] "GET /./libselinux1_3.10-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:30] "GET /./libzstd1_1.5.7%2bdfsg-3%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:30] "GET /./zlib1g_1.3.dfsg%2breally1.3.2-3_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:30] "GET /./libssl3t64_3.6.2-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:30] "GET /./openssl-provider-legacy_3.6.2-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:30] "GET /./libsystemd0_260.1-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:30] "GET /./coreutils_9.10-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:30] "GET /./dash_0.5.12-12_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:30] "GET /./diffutils_3.12-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:30] "GET /./libbz2-1.0_1.0.8-6%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:30] "GET /./liblzma5_5.8.3-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:30] "GET /./libmd0_1.1.0-2%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:30] "GET /./tar_1.35%2bdfsg-4_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:30] "GET /./dpkg_1.23.7_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:30] "GET /./findutils_4.10.0-4_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:30] "GET /./grep_3.12-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:30] "GET /./gzip_1.13-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:30] "GET /./hostname_3.25_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:30] "GET /./ncurses-bin_6.6%2b20251231-1%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:30] "GET /./libcrypt1_4.5.1-1%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:30] "GET /./perl-base_5.40.1-7%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:30] "GET /./sed_4.9-3_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:30] "GET /./libaudit-common_4.1.2-1_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:30] "GET /./libcap-ng0_0.9.3-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:30] "GET /./libaudit1_4.1.2-1%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:30] "GET /./libdb5.3t64_5.3.28%2bdfsg2-11%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:30] "GET /./debconf_1.5.92_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:30] "GET /./libpam0g_1.7.0-5%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:30] "GET /./libpam-modules-bin_1.7.0-5%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:30] "GET /./libpam-modules_1.7.0-5%2bb2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:30] "GET /./libpam-runtime_1.7.0-5_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:30] "GET /./libblkid1_2.42-6_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:30] "GET /./libmount1_2.42-6_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:30] "GET /./libsmartcols1_2.42-6_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:30] "GET /./libudev1_260.1-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:30] "GET /./libuuid1_2.42-6_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:30] "GET /./util-linux_2.42-6_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:30] "GET /./libdebconfclient0_0.282%2bb3_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:30] "GET /./base-passwd_3.6.8_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:30] "GET /./init-system-helpers_1.69_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:30] "GET /./libc-bin_2.42-15_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:30] "GET /./ncurses-base_6.6%2b20251231-1_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:30] "GET /./sysvinit-utils_3.18-1_amd64.deb HTTP/1.1" 200 - I: extracting archives... I: running --extract-hook directly: /usr/share/mmdebstrap/hooks/maybe-merged-usr/extract00.sh /srv/rebuilderd/tmp/mmdebstrap.PcrMKN0hxx 127.0.0.1 - - [16/May/2026 13:06:32] code 404, message File not found 127.0.0.1 - - [16/May/2026 13:06:32] "GET /./InRelease HTTP/1.1" 404 - Ign:1 http://localhost:44001 ./ InRelease 127.0.0.1 - - [16/May/2026 13:06:32] "GET /./Release HTTP/1.1" 304 - Hit:2 http://localhost:44001 ./ Release 127.0.0.1 - - [16/May/2026 13:06:32] code 404, message File not found 127.0.0.1 - - [16/May/2026 13:06:32] "GET /./Release.gpg HTTP/1.1" 404 - Ign:3 http://localhost:44001 ./ Release.gpg Reading package lists... usr-is-merged found but not real -- not running merged-usr extract hook I: installing essential packages... I: running --essential-hook directly: /usr/share/mmdebstrap/hooks/maybe-merged-usr/essential00.sh /srv/rebuilderd/tmp/mmdebstrap.PcrMKN0hxx usr-is-merged was not installed in a previous hook -- not running merged-usr essential hook I: installing remaining packages inside the chroot... 127.0.0.1 - - [16/May/2026 13:06:42] "GET /./mount_2.42-6_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:42] "GET /./libsystemd-shared_260.1-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:42] "GET /./systemd_260.1-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:42] "GET /./systemd-sysv_260.1-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:42] "GET /./libdbus-1-3_1.16.2-4_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:42] "GET /./dbus-bin_1.16.2-4_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:42] "GET /./dbus-session-bus-common_1.16.2-4_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:42] "GET /./libapparmor1_4.1.7-2_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:42] "GET /./libexpat1_2.8.0-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:42] "GET /./dbus-daemon_1.16.2-4_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:42] "GET /./dbus-system-bus-common_1.16.2-4_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:42] "GET /./dbus_1.16.2-4_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:42] "GET /./fonts-lato_2.015-1_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:42] "GET /./libpython3.13-minimal_3.13.12-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:42] "GET /./python3.13-minimal_3.13.12-1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:42] "GET /./python3-minimal_3.13.9-3%2bb1_amd64.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:42] "GET /./media-types_14.0.0_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:42] "GET /./netbase_6.5_all.deb HTTP/1.1" 200 - 127.0.0.1 - - [16/May/2026 13:06:42] "GET /./tzdata_2026b-1_all.deb HTTP/1.1" 200 - 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Building dependency tree... Reading state information... libglycin-2-0 is already the newest version (2.0.8-1). libglycin-2-0 set to manually installed. gcc-x86-64-linux-gnu is already the newest version (4:15.2.0-5+b1). gcc-x86-64-linux-gnu set to manually installed. libmpfr6 is already the newest version (4.2.2-3). libmpfr6 set to manually installed. python3-flexcache is already the newest version (0.3-3). python3-flexcache set to manually installed. tzdata is already the newest version (2026b-1). tzdata set to manually installed. comerr-dev is already the newest version (2.1-1.47.4-1). comerr-dev set to manually installed. libgcc-15-dev is already the newest version (15.2.0-17). libgcc-15-dev set to manually installed. libboost-graph1.90-dev is already the newest version (1.90.0-6). libboost-graph1.90-dev set to manually installed. architecture-properties is already the newest version (0.2.6+b2). architecture-properties set to manually installed. libsndfile1 is already the newest version (1.2.2-4+b1). libsndfile1 set to manually installed. libqt5core5t64 is already the newest version (5.15.17+dfsg-8). libqt5core5t64 set to manually installed. python3-setuptools is already the newest version (78.1.1-0.1). python3-setuptools set to manually installed. libboost-thread-dev is already the newest version (1.90.0.2). libboost-thread-dev set to manually installed. python3-decorator is already the newest version (5.2.1-2). python3-decorator set to manually installed. python3.14-tk is already the newest version (3.14.5~rc1-1). python3.14-tk set to manually installed. binutils-common is already the newest version (2.46-3). binutils-common set to manually installed. libopus0 is already the newest version (1.6.1-1+b1). libopus0 set to manually installed. python3-kiwisolver is already the newest version (1.5.0-1). python3-kiwisolver set to manually installed. python-matplotlib-data is already the newest version (3.10.7+dfsg1-3). python-matplotlib-data set to manually installed. libnuma1 is already the newest version (2.0.19-1+b2). libnuma1 set to manually installed. libxkbcommon0 is already the newest version (1.13.1-1). libxkbcommon0 set to manually installed. libtool is already the newest version (2.5.4-11). libtool set to manually installed. jq is already the newest version (1.8.1-5). jq set to manually installed. libfabric1 is already the newest version (2.1.0-1.1+b2). libfabric1 set to manually installed. adwaita-icon-theme is already the newest version (50.0-1). adwaita-icon-theme set to manually installed. libgfortran5 is already the newest version (16-20260425-1). libgfortran5 set to manually installed. glycin-thumbnailers is already the newest version (2.0.8-1). glycin-thumbnailers set to manually installed. libpython3.14-minimal is already the newest version (3.14.5~rc1-1). libpython3.14-minimal set to manually installed. libxxf86vm1 is already the newest version (1:1.1.4-2+b1). libxxf86vm1 set to manually installed. libboost-python-dev is already the newest version (1.90.0.2). libboost-python-dev set to manually installed. libmagic-mgc is already the newest version (1:5.46-5+b2). libmagic-mgc set to manually installed. python3-wxgtk4.0 is already the newest version (4.2.4+dfsg-1). python3-wxgtk4.0 set to manually installed. libwxbase3.2-1t64 is already the newest version (3.2.9+dfsg-1+b1). libwxbase3.2-1t64 set to manually installed. python3-pil.imagetk is already the newest version (12.2.0-1). python3-pil.imagetk set to manually installed. libapparmor1 is already the newest version (4.1.7-2). libapparmor1 set to manually installed. libtcl8.6 is already the newest version (8.6.17+dfsg-1+b2). libtcl8.6 set to manually installed. dbus-user-session is already the newest version (1.16.2-4). dbus-user-session set to manually installed. libantlr3c-dev is already the newest version (3.4+dfsg-4+b3). libantlr3c-dev set to manually installed. sfftw-dev is already the newest version (2.1.5-8). sfftw-dev set to manually installed. libcairo2 is already the newest version (1.18.4-3+b1). libcairo2 set to manually installed. libfuse3-4 is already the newest version (3.18.2-2). libfuse3-4 set to manually installed. python3-zipp is already the newest version (3.23.0-1). python3-zipp set to manually installed. libhwloc15 is already the newest version (2.13.0-2). libhwloc15 set to manually installed. libhdf5-fortran-310 is already the newest version (1.14.6+repack-2+b1). libhdf5-fortran-310 set to manually installed. libsdl3-0 is already the newest version (3.4.8+ds-1). libsdl3-0 set to manually installed. libz3-4 is already the newest version (4.13.3-1+b2). libz3-4 set to manually installed. binutils is already the newest version (2.46-3). binutils set to manually installed. libjbig-dev is already the newest version (2.1-6.1+b3). libjbig-dev set to manually installed. libthai-data is already the newest version (0.1.30-1). libthai-data set to manually installed. python3-nxmx is already the newest version (0.0.7-1). python3-nxmx set to manually installed. libfftw3-double3 is already the newest version (3.3.10-2+b2). libfftw3-double3 set to manually installed. libsm6 is already the newest version (2:1.2.6-1+b2). libsm6 set to manually installed. libk5crypto3 is already the newest version (1.22.1-2+b1). libk5crypto3 set to manually installed. hicolor-icon-theme is already the newest version (0.18-2). hicolor-icon-theme set to manually installed. python3-psutil is already the newest version (7.1.0-1). python3-psutil set to manually installed. libperl5.40 is already the newest version (5.40.1-7+b1). libperl5.40 set to manually installed. ncurses-bin is already the newest version (6.6+20251231-1+b1). libhsa-runtime64-1 is already the newest version (6.4.3+dfsg-5). libhsa-runtime64-1 set to manually installed. pybind11-dev is already the newest version (3.0.1-3). pybind11-dev set to manually installed. libx11-dev is already the newest version (2:1.8.13-1). libx11-dev set to manually installed. python3-minimal is already the newest version (3.13.9-3+b1). python3-minimal set to manually installed. python3-dateutil is already the newest version (2.9.0-4). python3-dateutil set to manually installed. python3-inflect is already the newest version (7.5.0-1). python3-inflect set to manually installed. build-essential is already the newest version (12.12). build-essential set to manually installed. libffi8 is already the newest version (3.5.2-4). libffi8 set to manually installed. coreutils is already the newest version (9.10-1). libfftw3-single3 is already the newest version (3.3.10-2+b2). libfftw3-single3 set to manually installed. libpam-modules-bin is already the newest version (1.7.0-5+b2). librdmacm1t64 is already the newest version (63.0-1). librdmacm1t64 set to manually installed. libccp4-dev is already the newest version (8.0.0-5+b1). libccp4-dev set to manually installed. libgudev-1.0-0 is already the newest version (238-7+b2). libgudev-1.0-0 set to manually installed. pymol-data is already the newest version (3.1.0+dfsg-1). pymol-data set to manually installed. python3-pytest is already the newest version (9.0.3-1). python3-pytest set to manually installed. python3-lxml is already the newest version (6.1.0-1). python3-lxml set to manually installed. libpython3.13 is already the newest version (3.13.12-1). libpython3.13 set to manually installed. python3-pycbf is already the newest version (0.9.7+dfsg1-5.1+b1). python3-pycbf set to manually installed. libidn2-0 is already the newest version (2.3.8-4+b2). libidn2-0 set to manually installed. libtiffxx6 is already the newest version (4.7.1-2). libtiffxx6 set to manually installed. libgmpxx4ldbl is already the newest version (2:6.3.0+dfsg-5+b2). libgmpxx4ldbl set to manually installed. libxcb-dri3-0 is already the newest version (1.17.0-2+b2). libxcb-dri3-0 set to manually installed. libamdhip64-6 is already the newest version (6.4.3-5). libamdhip64-6 set to manually installed. mount is already the newest version (2.42-6). mount set to manually installed. python3-natsort is already the newest version (8.4.0-2). python3-natsort set to manually installed. libboost-container1.90.0 is already the newest version (1.90.0-6). libboost-container1.90.0 set to manually installed. libblas3 is already the newest version (3.12.1-7+b2). libblas3 set to manually installed. systemd-sysv is already the newest version (260.1-1). systemd-sysv set to manually installed. libxext6 is already the newest version (2:1.3.4-1+b4). libxext6 set to manually installed. libxft2 is already the newest version (2.3.6-1+b5). libxft2 set to manually installed. sensible-utils is already the newest version (0.0.26). sensible-utils set to manually installed. libssl3t64 is already the newest version (3.6.2-1). libpipeline1 is already the newest version (1.5.8-3). libpipeline1 set to manually installed. libpcre2-8-0 is already the newest version (10.46-1+b2). libaudit-common is already the newest version (1:4.1.2-1). libxcb-shm0 is already the newest version (1.17.0-2+b2). libxcb-shm0 set to manually installed. python3-h5py is already the newest version (3.16.0-2). python3-h5py set to manually installed. dconf-service is already the newest version (0.49.0-4+b1). dconf-service set to manually installed. libsz2 is already the newest version (1.1.6-1). libsz2 set to manually installed. dbus-daemon is already the newest version (1.16.2-4). dbus-daemon set to manually installed. libraqm0 is already the newest version (0.10.5-1). libraqm0 set to manually installed. libinput-bin is already the newest version (1.31.1-1). libinput-bin set to manually installed. python3-jaraco.context is already the newest version (6.0.1-2). python3-jaraco.context set to manually installed. sysvinit-utils is already the newest version (3.18-1). libgraphite2-3 is already the newest version (1.3.14-13). libgraphite2-3 set to manually installed. dh-exec is already the newest version (0.31). dh-exec set to manually installed. dh-strip-nondeterminism is already the newest version (1.15.0-1). dh-strip-nondeterminism set to manually installed. libonig5 is already the newest version (6.9.10-1+b1). libonig5 set to manually installed. python3-msgpack is already the newest version (1.1.2-2). python3-msgpack set to manually installed. dbus-system-bus-common is already the newest version (1.16.2-4). dbus-system-bus-common set to manually installed. libboost-python1.90.0 is already the newest version (1.90.0-6). libboost-python1.90.0 set to manually installed. libegl1 is already the newest version (1.7.0-3+b1). libegl1 set to manually installed. libllvm21 is already the newest version (1:21.1.8-7+b1). libllvm21 set to manually installed. libtasn1-6 is already the newest version (4.21.0-2+b1). libtasn1-6 set to manually installed. libjs-jquery is already the newest version (3.7.1+dfsg+~3.5.33-1). libjs-jquery set to manually installed. python3-tk is already the newest version (3.13.9-3+b1). python3-tk set to manually installed. python3.14-dev is already the newest version (3.14.5~rc1-1). python3.14-dev set to manually installed. libmtdev1t64 is already the newest version (1.1.7-1+b2). libmtdev1t64 set to manually installed. libhogweed6t64 is already the newest version (3.10.2-1+b1). libhogweed6t64 set to manually installed. libqt5dbus5t64 is already the newest version (5.15.17+dfsg-8). libqt5dbus5t64 set to manually installed. libc6-dev is already the newest version (2.42-15). libc6-dev set to manually installed. ocl-icd-libopencl1 is already the newest version (2.3.4-1+b1). ocl-icd-libopencl1 set to manually installed. dh-autoreconf is already the newest version (22). dh-autoreconf set to manually installed. libmpc3 is already the newest version (1.3.1-3). libmpc3 set to manually installed. libcrypt1 is already the newest version (1:4.5.1-1+b1). fonts-dejavu-mono is already the newest version (2.37-9). fonts-dejavu-mono set to manually installed. libmpg123-0t64 is already the newest version (1.33.5-1). libmpg123-0t64 set to manually installed. hdf5-helpers is already the newest version (1.14.6+repack-2+b1). hdf5-helpers set to manually installed. libp11-kit0 is already the newest version (0.26.2-2). libp11-kit0 set to manually installed. fonts-lyx is already the newest version (2.5.1-1). fonts-lyx set to manually installed. libgl1 is already the newest version (1.7.0-3+b1). libgl1 set to manually installed. libann-cctbx0 is already the newest version (1.1.2+doc-9+b1). libann-cctbx0 set to manually installed. python3-h5py-serial is already the newest version (3.16.0-2). python3-h5py-serial set to manually installed. libgdk-pixbuf-2.0-0 is already the newest version (2.44.6+dfsg-2). libgdk-pixbuf-2.0-0 set to manually installed. dpkg is already the newest version (1.23.7). pybuild-plugin-pyproject is already the newest version (7.20260309). pybuild-plugin-pyproject set to manually installed. libexpat1 is already the newest version (2.8.0-1). libexpat1 set to manually installed. autopoint is already the newest version (0.23.2-2). autopoint set to manually installed. libqt5network5t64 is already the newest version (5.15.17+dfsg-8). libqt5network5t64 set to manually installed. libxcb-util1 is already the newest version (0.4.1-1+b2). libxcb-util1 set to manually installed. libboost-numpy1.90.0 is already the newest version (1.90.0-6). libboost-numpy1.90.0 set to manually installed. libmmdb2-0 is already the newest version (2.0.22-1+b3). libmmdb2-0 set to manually installed. libtasn1-6-dev is already the newest version (4.21.0-2+b1). libtasn1-6-dev set to manually installed. dbus is already the newest version (1.16.2-4). dbus set to manually installed. fftw2 is already the newest version (2.1.5-8). fftw2 set to manually installed. libqt5printsupport5t64 is already the newest version (5.15.17+dfsg-8). libqt5printsupport5t64 set to manually installed. libwayland-client0 is already the newest version (1.24.0-2+b2). libwayland-client0 set to manually installed. gettext is already the newest version (0.23.2-2). gettext set to manually installed. libsystemd-shared is already the newest version (260.1-1). libsystemd-shared set to manually installed. libharfbuzz0b is already the newest version (12.3.2-2+b2). libharfbuzz0b set to manually installed. libthai0 is already the newest version (0.1.30-1+b1). libthai0 set to manually installed. python3-jaraco.functools is already the newest version (4.1.0-1). python3-jaraco.functools set to manually installed. mawk is already the newest version (1.3.4.20260302-1). libxshmfence1 is already the newest version (1.3.3-1+b2). libxshmfence1 set to manually installed. libvorbis0a is already the newest version (1.3.7-3+b2). libvorbis0a set to manually installed. libkdb5-10t64 is already the newest version (1.22.1-2+b1). libkdb5-10t64 set to manually installed. libproc2-0 is already the newest version (2:4.0.4-9+b2). libproc2-0 set to manually installed. libboost1.90-dev is already the newest version (1.90.0-6). libboost1.90-dev set to manually installed. unicode-data is already the newest version (17.0.0-2). unicode-data set to manually installed. libsmartcols1 is already the newest version (2.42-6). libpmix2t64 is already the newest version (6.0.0+really5.0.9-3+b1). libpmix2t64 set to manually installed. libdebhelper-perl is already the newest version (13.31). libdebhelper-perl set to manually installed. libccp4c0t64 is already the newest version (8.0.0-5+b1). libccp4c0t64 set to manually installed. linux-libc-dev is already the newest version (7.0.3-1). linux-libc-dev set to manually installed. libxcb-xkb1 is already the newest version (1.17.0-2+b2). libxcb-xkb1 set to manually installed. fonts-dejavu-extra is already the newest version (2.37-9). fonts-dejavu-extra set to manually installed. python3-urllib3 is already the newest version (2.6.3-2). python3-urllib3 set to manually installed. patch is already the newest version (2.8-2). patch set to manually installed. libdbus-1-3 is already the newest version (1.16.2-4). libdbus-1-3 set to manually installed. liblerc4 is already the newest version (4.1.0+ds-1). liblerc4 set to manually installed. python3-typeguard is already the newest version (4.4.4-2). python3-typeguard set to manually installed. python3-pint is already the newest version (0.25.3-1). python3-pint set to manually installed. libpam-modules is already the newest version (1.7.0-5+b2). libglx0 is already the newest version (1.7.0-3+b1). libglx0 set to manually installed. libkeyutils1 is already the newest version (1.6.3-6+b2). libkeyutils1 set to manually installed. libevent-core-2.1-7t64 is already the newest version (2.1.12-stable-10+b2). libevent-core-2.1-7t64 set to manually installed. dpkg-dev is already the newest version (1.23.7). dpkg-dev set to manually installed. librav1e0.8 is already the newest version (0.8.1-10). librav1e0.8 set to manually installed. python3-build is already the newest version (1.4.0-1). python3-build set to manually installed. libwebp7 is already the newest version (1.5.0-0.1+b2). libwebp7 set to manually installed. libccp4f0t64 is already the newest version (8.0.0-5+b1). libccp4f0t64 set to manually installed. libboost-container1.90-dev is already the newest version (1.90.0-6). libboost-container1.90-dev set to manually installed. libselinux1 is already the newest version (3.10-1). libp11-kit-dev is already the newest version (0.26.2-2). libp11-kit-dev set to manually installed. libnetcdf22 is already the newest version (1:4.10.0-1). libnetcdf22 set to manually installed. perl-base is already the newest version (5.40.1-7+b1). libfftw3-quad3 is already the newest version (3.3.10-2+b2). libfftw3-quad3 set to manually installed. libhdf5-hl-fortran-310 is already the newest version (1.14.6+repack-2+b1). libhdf5-hl-fortran-310 set to manually installed. libncursesw6 is already the newest version (6.6+20251231-1+b1). libncursesw6 set to manually installed. libxcb-xfixes0 is already the newest version (1.17.0-2+b2). libxcb-xfixes0 set to manually installed. libcbf-dev is already the newest version (0.9.7+dfsg1-5.1+b1). libcbf-dev set to manually installed. libavahi-common3 is already the newest version (0.8-18). libavahi-common3 set to manually installed. libboost-test1.90-dev is already the newest version (1.90.0-6). libboost-test1.90-dev set to manually installed. libpangoft2-1.0-0 is already the newest version (1.57.1-2). libpangoft2-1.0-0 set to manually installed. python3-wheel is already the newest version (0.47.0-1). python3-wheel set to manually installed. python3-jaraco.text is already the newest version (4.0.0-1). python3-jaraco.text set to manually installed. ibverbs-providers is already the newest version (63.0-1). ibverbs-providers set to manually installed. libboost-numpy-dev is already the newest version (1.90.0.2). libboost-numpy-dev set to manually installed. python3-scipy is already the newest version (1.16.3-4). python3-scipy set to manually installed. libpsm2-2 is already the newest version (11.2.185-2.1). libpsm2-2 set to manually installed. python3-fonttools is already the newest version (4.62.1-7). python3-fonttools set to manually installed. sfftw2 is already the newest version (2.1.5-8). sfftw2 set to manually installed. libvulkan1 is already the newest version (1.4.341.0-1). libvulkan1 set to manually installed. base-files is already the newest version (14). debianutils is already the newest version (5.23.2). libqt5sql5t64 is already the newest version (5.15.17+dfsg-8). libqt5sql5t64 set to manually installed. liblzma-dev is already the newest version (5.8.3-1). liblzma-dev set to manually installed. xkb-data is already the newest version (2.47-1). xkb-data set to manually installed. libmmdb2-dev is already the newest version (2.0.22-1+b3). libmmdb2-dev set to manually installed. libx11-6 is already the newest version (2:1.8.13-1). libx11-6 set to manually installed. util-linux is already the newest version (2.42-6). liblsan0 is already the newest version (16-20260425-1). liblsan0 set to manually installed. libxcb-keysyms1 is already the newest version (0.4.1-1+b2). libxcb-keysyms1 set to manually installed. libclipper2 is already the newest version (2.1.20201109-2+b4). libclipper2 set to manually installed. libkadm5srv-mit12 is already the newest version (1.22.1-2+b1). libkadm5srv-mit12 set to manually installed. libxi6 is already the newest version (2:1.8.2-2+b1). libxi6 set to manually installed. libhdf5-hl-cpp-310 is already the newest version (1.14.6+repack-2+b1). libhdf5-hl-cpp-310 set to manually installed. libblkid1 is already the newest version (2.42-6). dconf-gsettings-backend is already the newest version (0.49.0-4+b1). dconf-gsettings-backend set to manually installed. groff-base is already the newest version (1.24.1-1). groff-base set to manually installed. python3-hdf5plugin is already the newest version (5.1.0-1). python3-hdf5plugin set to manually installed. python3-freetype is already the newest version (2.5.1-2). python3-freetype set to manually installed. libgl-dev is already the newest version (1.7.0-3+b1). libgl-dev set to manually installed. sed is already the newest version (4.9-3). libclipper-dev is already the newest version (2.1.20201109-2+b4). libclipper-dev set to manually installed. automake is already the newest version (1:1.18.1-4). automake set to manually installed. libucx0 is already the newest version (1.20.1~rc2-1). libucx0 set to manually installed. libxres1 is already the newest version (2:1.2.1-2). libxres1 set to manually installed. libnl-route-3-200 is already the newest version (3.12.0-2+b1). libnl-route-3-200 set to manually installed. libjbig0 is already the newest version (2.1-6.1+b3). libjbig0 set to manually installed. libdrm-amdgpu1 is already the newest version (2.4.131-1+b1). libdrm-amdgpu1 set to manually installed. libxxhash0 is already the newest version (0.8.3-2+b2). libxxhash0 set to manually installed. libboost-python1.90-dev is already the newest version (1.90.0-6). libboost-python1.90-dev set to manually installed. file is already the newest version (1:5.46-5+b2). file set to manually installed. libheif-plugin-libde265 is already the newest version (1.21.2-4). libheif-plugin-libde265 set to manually installed. python3-typing-extensions is already the newest version (4.15.0-2). python3-typing-extensions set to manually installed. libaudit1 is already the newest version (1:4.1.2-1+b1). openssl is already the newest version (3.6.2-1). openssl set to manually installed. libgpg-error0 is already the newest version (1.59-4). libgpg-error0 set to manually installed. libglib2.0-0t64 is already the newest version (2.88.1-2). libglib2.0-0t64 set to manually installed. libuchardet0 is already the newest version (0.0.8-2+b2). libuchardet0 set to manually installed. libdebconfclient0 is already the newest version (0.282+b3). libcbf1t64 is already the newest version (0.9.7+dfsg1-5.1+b1). libcbf1t64 set to manually installed. libatspi2.0-0t64 is already the newest version (2.60.3-1). libatspi2.0-0t64 set to manually installed. libboost-chrono1.90.0 is already the newest version (1.90.0-6). libboost-chrono1.90.0 set to manually installed. w3c-sgml-lib is already the newest version (1.3-3). w3c-sgml-lib set to manually installed. python3-biopython is already the newest version (1.86+dfsg-1+b1). python3-biopython set to manually installed. libjpeg62-turbo-dev is already the newest version (1:3.1.3-4). libjpeg62-turbo-dev set to manually installed. python3.13-dev is already the newest version (3.13.12-1). python3.13-dev set to manually installed. libqt5opengl5t64 is already the newest version (5.15.17+dfsg-8). libqt5opengl5t64 set to manually installed. libasyncns0 is already the newest version (0.8-7+b2). libasyncns0 set to manually installed. libyuv0 is already the newest version (0.0.1922.20260106-1+b1). libyuv0 set to manually installed. libkrb5-dev is already the newest version (1.22.1-2+b1). libkrb5-dev set to manually installed. libacl1 is already the newest version (2.3.2-3). libpam-systemd is already the newest version (260.1-1). libpam-systemd set to manually installed. libunistring5 is already the newest version (1.4.2-1). libunistring5 set to manually installed. libssl-dev is already the newest version (3.6.2-1). libssl-dev set to manually installed. libwayland-egl1 is already the newest version (1.24.0-2+b2). libwayland-egl1 set to manually installed. python3 is already the newest version (3.13.9-3+b1). python3 set to manually installed. readline-common is already the newest version (8.3-4). readline-common set to manually installed. libgbm1 is already the newest version (26.0.6-1). libgbm1 set to manually installed. libwacom-common is already the newest version (2.18.0-1). libwacom-common set to manually installed. libjpeg62-turbo is already the newest version (1:3.1.3-4). libjpeg62-turbo set to manually installed. libubsan1 is already the newest version (16-20260425-1). libubsan1 set to manually installed. libdpkg-perl is already the newest version (1.23.7). libdpkg-perl set to manually installed. libxcb-xinerama0 is already the newest version (1.17.0-2+b2). libxcb-xinerama0 set to manually installed. libpam0g is already the newest version (1.7.0-5+b2). python3-cycler is already the newest version (0.12.1-2). python3-cycler set to manually installed. libxcb-shape0 is already the newest version (1.17.0-2+b2). libxcb-shape0 set to manually installed. libgtk-3-0t64 is already the newest version (3.24.52-1). libgtk-3-0t64 set to manually installed. libcups2t64 is already the newest version (2.4.18-1). libcups2t64 set to manually installed. python3.13-tk is already the newest version (3.13.12-1). python3.13-tk set to manually installed. libgles2 is already the newest version (1.7.0-3+b1). libgles2 set to manually installed. libxslt1.1 is already the newest version (1.1.45-0.1). libxslt1.1 set to manually installed. libfftw3-dev is already the newest version (3.3.10-2+b2). libfftw3-dev set to manually installed. libflac14 is already the newest version (1.5.0+ds-5+b1). libflac14 set to manually installed. libstdc++6 is already the newest version (16-20260425-1). libstdc++6 set to manually installed. python3-all is already the newest version (3.13.9-3+b1). python3-all set to manually installed. libexpat1-dev is already the newest version (2.8.0-1). libexpat1-dev set to manually installed. libdouble-conversion3 is already the newest version (3.4.0-1+b1). libdouble-conversion3 set to manually installed. krb5-multidev is already the newest version (1.22.1-2+b1). krb5-multidev set to manually installed. libantlr3c-3.4-0 is already the newest version (3.4+dfsg-4+b3). libantlr3c-3.4-0 set to manually installed. at-spi2-common is already the newest version (2.60.3-1). at-spi2-common set to manually installed. libglu1-mesa-dev is already the newest version (9.0.2-1.1+b4). libglu1-mesa-dev set to manually installed. libkrb5-3 is already the newest version (1.22.1-2+b1). libkrb5-3 set to manually installed. debhelper is already the newest version (13.31). debhelper set to manually installed. libqt5gui5t64 is already the newest version (5.15.17+dfsg-8). libqt5gui5t64 set to manually installed. libwacom9 is already the newest version (2.18.0-1). libwacom9 set to manually installed. liblzma5 is already the newest version (5.8.3-1). g++-15 is already the newest version (15.2.0-17). g++-15 set to manually installed. python3-mrcfile is already the newest version (1.5.4-3). python3-mrcfile set to manually installed. libqt5designer5 is already the newest version (5.15.17-4+b1). libqt5designer5 set to manually installed. python3-dev is already the newest version (3.13.9-3+b1). python3-dev set to manually installed. libbinutils is already the newest version (2.46-3). libbinutils set to manually installed. libdrm-common is already the newest version (2.4.131-1). libdrm-common set to manually installed. libabsl20260107 is already the newest version (20260107.0-5). libabsl20260107 set to manually installed. xorg-sgml-doctools is already the newest version (1:1.12.1-1). xorg-sgml-doctools set to manually installed. libatomic1 is already the newest version (16-20260425-1). libatomic1 set to manually installed. libedit2 is already the newest version (3.1-20251016-1+b1). libedit2 set to manually installed. python3-trove-classifiers is already the newest version (2026.1.14.14-1). python3-trove-classifiers set to manually installed. gcc-15-x86-64-linux-gnu is already the newest version (15.2.0-17). gcc-15-x86-64-linux-gnu set to manually installed. pkgconf-bin is already the newest version (2.5.1-4). pkgconf-bin set to manually installed. libcom-err2 is already the newest version (1.47.4-1). libcom-err2 set to manually installed. fonts-lato is already the newest version (2.015-1). fonts-lato set to manually installed. libatk1.0-0t64 is already the newest version (2.60.3-1). libatk1.0-0t64 set to manually installed. libfribidi0 is already the newest version (1.0.16-5+b1). libfribidi0 set to manually installed. librtmp-dev is already the newest version (2.6-1). librtmp-dev set to manually installed. libze1 is already the newest version (1.28.2-2). libze1 set to manually installed. libboost-regex1.90-dev is already the newest version (1.90.0-6). libboost-regex1.90-dev set to manually installed. libatk-bridge2.0-0t64 is already the newest version (2.60.3-1). libatk-bridge2.0-0t64 set to manually installed. libxtst6 is already the newest version (2:1.2.5-1+b2). libxtst6 set to manually installed. libcurl3t64-gnutls is already the newest version (8.20.0-1). libcurl3t64-gnutls set to manually installed. cpp-x86-64-linux-gnu is already the newest version (4:15.2.0-5+b1). cpp-x86-64-linux-gnu set to manually installed. libhdf5-dev is already the newest version (1.14.6+repack-2+b1). libhdf5-dev set to manually installed. libxcb-glx0 is already the newest version (1.17.0-2+b2). libxcb-glx0 set to manually installed. libxcb-xinput0 is already the newest version (1.17.0-2+b2). libxcb-xinput0 set to manually installed. libnghttp2-dev is already the newest version (1.69.0-1). libnghttp2-dev set to manually installed. libqhull-r8.0 is already the newest version (2020.2-9). libqhull-r8.0 set to manually installed. libnghttp3-9 is already the newest version (1.15.0-1). libnghttp3-9 set to manually installed. libx11-xcb1 is already the newest version (2:1.8.13-1). libx11-xcb1 set to manually installed. python3-installer is already the newest version (1.0.0+dfsg1-1). python3-installer set to manually installed. libvorbisenc2 is already the newest version (1.3.7-3+b2). libvorbisenc2 set to manually installed. init-system-helpers is already the newest version (1.69). g++-x86-64-linux-gnu is already the newest version (4:15.2.0-5+b1). g++-x86-64-linux-gnu set to manually installed. libqt5test5t64 is already the newest version (5.15.17+dfsg-8). libqt5test5t64 set to manually installed. libcurl4-openssl-dev is already the newest version (8.20.0-1). libcurl4-openssl-dev set to manually installed. libibmad5 is already the newest version (63.0-1). libibmad5 set to manually installed. libpsl-dev is already the newest version (0.21.5-1). libpsl-dev set to manually installed. librsvg2-2 is already the newest version (2.62.1+dfsg-1). librsvg2-2 set to manually installed. libtinfo6 is already the newest version (6.6+20251231-1+b1). libpcre2-16-0 is already the newest version (10.46-1+b2). libpcre2-16-0 set to manually installed. libelf1t64 is already the newest version (0.195-1). libelf1t64 set to manually installed. python3-pkg-resources is already the newest version (78.1.1-0.1). python3-pkg-resources set to manually installed. libgav1-2 is already the newest version (0.20.0-2+b1). libgav1-2 set to manually installed. libjs-sphinxdoc is already the newest version (9.1.0-2). libjs-sphinxdoc set to manually installed. libclang-common-21-dev is already the newest version (1:21.1.8-7+b1). libclang-common-21-dev set to manually installed. libpixman-1-0 is already the newest version (0.46.4-1+b2). libpixman-1-0 set to manually installed. python3-pyparsing is already the newest version (3.3.2-2). python3-pyparsing set to manually installed. libgnutls-dane0t64 is already the newest version (3.8.13-1). libgnutls-dane0t64 set to manually installed. libglut3.12 is already the newest version (3.4.0-6+b2). libglut3.12 set to manually installed. cpp is already the newest version (4:15.2.0-5+b1). cpp set to manually installed. fontconfig is already the newest version (2.17.1-5). fontconfig set to manually installed. libtiff6 is already the newest version (4.7.1-2). libtiff6 set to manually installed. librtmp1 is already the newest version (2.6-1). librtmp1 set to manually installed. python3-pygments is already the newest version (2.19.2+dfsg-1). python3-pygments set to manually installed. libxcb1-dev is already the newest version (1.17.0-2+b2). libxcb1-dev set to manually installed. libssh2-1-dev is already the newest version (1.11.1-2). libssh2-1-dev set to manually installed. libtiff-dev is already the newest version (4.7.1-2). libtiff-dev set to manually installed. libboost-thread1.90.0 is already the newest version (1.90.0-6). libboost-thread1.90.0 set to manually installed. libhdf5-hl-310 is already the newest version (1.14.6+repack-2+b1). libhdf5-hl-310 set to manually installed. libzstd1 is already the newest version (1.5.7+dfsg-3+b2). libhwloc-plugins is already the newest version (2.13.0-2). libhwloc-plugins set to manually installed. ca-certificates is already the newest version (20260223). ca-certificates set to manually installed. libunbound8 is already the newest version (1.25.0-1). libunbound8 set to manually installed. python3-procrunner is already the newest version (2.3.3-2). python3-procrunner set to manually installed. libavahi-common-data is already the newest version (0.8-18). libavahi-common-data set to manually installed. libboost-atomic1.90.0 is already the newest version (1.90.0-6). libboost-atomic1.90.0 set to manually installed. libhwy1t64 is already the newest version (1.3.0-2+b1). libhwy1t64 set to manually installed. liblz4-1 is already the newest version (1.10.0-10). liblz4-1 set to manually installed. libctf-nobfd0 is already the newest version (2.46-3). libctf-nobfd0 set to manually installed. libjpeg-dev is already the newest version (1:3.1.3-4). libjpeg-dev set to manually installed. libnl-3-200 is already the newest version (3.12.0-2+b1). libnl-3-200 set to manually installed. libxrandr2 is already the newest version (2:1.5.4-1+b4). libxrandr2 set to manually installed. libavif16 is already the newest version (1.4.1-1+b1). libavif16 set to manually installed. libopenmpi40 is already the newest version (5.0.10-1). libopenmpi40 set to manually installed. libxinerama1 is already the newest version (2:1.1.4-3+b5). libxinerama1 set to manually installed. libopengl0 is already the newest version (1.7.0-3+b1). libopengl0 set to manually installed. libc-gconv-modules-extra is already the newest version (2.42-15). libpangocairo-1.0-0 is already the newest version (1.57.1-2). libpangocairo-1.0-0 set to manually installed. libtsan2 is already the newest version (16-20260425-1). libtsan2 set to manually installed. libxnvctrl0 is already the newest version (535.171.04-1+b3). libxnvctrl0 set to manually installed. libbz2-1.0 is already the newest version (1.0.8-6+b2). libkrb5support0 is already the newest version (1.22.1-2+b1). libkrb5support0 set to manually installed. libldap2 is already the newest version (2.6.10+dfsg-1+b2). libldap2 set to manually installed. libgcc-s1 is already the newest version (16-20260425-1). libidn2-dev is already the newest version (2.3.8-4+b2). libidn2-dev set to manually installed. libpython3.13-stdlib is already the newest version (3.13.12-1). libpython3.13-stdlib set to manually installed. libsharpyuv0 is already the newest version (1.5.0-0.1+b2). libsharpyuv0 set to manually installed. libdconf1 is already the newest version (0.49.0-4+b1). libdconf1 set to manually installed. libevent-pthreads-2.1-7t64 is already the newest version (2.1.12-stable-10+b2). libevent-pthreads-2.1-7t64 set to manually installed. nettle-dev is already the newest version (3.10.2-1+b1). nettle-dev set to manually installed. libstdc++-15-dev is already the newest version (15.2.0-17). libstdc++-15-dev set to manually installed. xfonts-utils is already the newest version (1:7.7+7). xfonts-utils set to manually installed. python3-legacy-cgi is already the newest version (2.6.4-2). python3-legacy-cgi set to manually installed. gcc-16-base is already the newest version (16-20260425-1). dbus-session-bus-common is already the newest version (1.16.2-4). dbus-session-bus-common set to manually installed. libharfbuzz-subset0 is already the newest version (12.3.2-2+b2). libharfbuzz-subset0 set to manually installed. g++ is already the newest version (4:15.2.0-5+b1). g++ set to manually installed. rsync is already the newest version (3.4.2+ds1-2). rsync set to manually installed. libquadmath0 is already the newest version (16-20260425-1). libquadmath0 set to manually installed. libpsl5t64 is already the newest version (0.21.5-1). libpsl5t64 set to manually installed. libjxl0.11 is already the newest version (0.11.2-1). libjxl0.11 set to manually installed. libxrender1 is already the newest version (1:0.9.12-1+b2). libxrender1 set to manually installed. sphinx-rtd-theme-common is already the newest version (3.1.0+dfsg-1). sphinx-rtd-theme-common set to manually installed. gcc is already the newest version (4:15.2.0-5+b1). gcc set to manually installed. libboost-thread1.90-dev is already the newest version (1.90.0-6). libboost-thread1.90-dev set to manually installed. libxss1 is already the newest version (1:1.2.3-1+b4). libxss1 set to manually installed. libcap2 is already the newest version (1:2.78-1). libcap2 set to manually installed. python3-pip is already the newest version (26.0.1+dfsg-1). python3-pip set to manually installed. libmp3lame0 is already the newest version (3.101~svn6531+dfsg-1). libmp3lame0 set to manually installed. libdeflate-dev is already the newest version (1.23-2+b2). libdeflate-dev set to manually installed. python3.13 is already the newest version (3.13.12-1). python3.13 set to manually installed. libpython3-all-dev is already the newest version (3.13.9-3+b1). libpython3-all-dev set to manually installed. python3-ordered-set is already the newest version (4.1.0-1). python3-ordered-set set to manually installed. make is already the newest version (4.4.1-3). make set to manually installed. libdrm-intel1 is already the newest version (2.4.131-1+b1). libdrm-intel1 set to manually installed. fonts-dejavu-core is already the newest version (2.37-9). fonts-dejavu-core set to manually installed. libaec0 is already the newest version (1.1.6-1). libaec0 set to manually installed. python3-idna is already the newest version (3.11-1). python3-idna set to manually installed. po-debconf is already the newest version (1.0.22). po-debconf set to manually installed. python3-chardet is already the newest version (5.2.0+dfsg-2). python3-chardet set to manually installed. libreadline8t64 is already the newest version (8.3-4). libreadline8t64 set to manually installed. python3-more-itertools is already the newest version (10.8.0-1). python3-more-itertools set to manually installed. ncurses-base is already the newest version (6.6+20251231-1). libfontconfig1 is already the newest version (2.17.1-5). libfontconfig1 set to manually installed. libsdl2-2.0-0 is already the newest version (2.32.68+ds-1). libsdl2-2.0-0 set to manually installed. libxcb-image0 is already the newest version (0.4.0-2+b3). libxcb-image0 set to manually installed. libgomp1 is already the newest version (16-20260425-1). libgomp1 set to manually installed. libwebpdemux2 is already the newest version (1.5.0-0.1+b2). libwebpdemux2 set to manually installed. python3.14 is already the newest version (3.14.5~rc1-1). python3.14 set to manually installed. libgnutls28-dev is already the newest version (3.8.13-1). libgnutls28-dev set to manually installed. libpango-1.0-0 is already the newest version (1.57.1-2). libpango-1.0-0 set to manually installed. media-types is already the newest version (14.0.0). media-types set to manually installed. netbase is already the newest version (6.5). netbase set to manually installed. libboost-regex1.90.0 is already the newest version (1.90.0-6). libboost-regex1.90.0 set to manually installed. dbus-bin is already the newest version (1.16.2-4). dbus-bin set to manually installed. python3-contourpy is already the newest version (1.3.3-1+b1). python3-contourpy set to manually installed. python3-mpmath is already the newest version (1.4.1-2). python3-mpmath set to manually installed. libegl-mesa0 is already the newest version (26.0.6-1). libegl-mesa0 set to manually installed. gzip is already the newest version (1.13-1). xfonts-encodings is already the newest version (1:1.0.4-2.2). xfonts-encodings set to manually installed. intltool-debian is already the newest version (0.35.0+20060710.6). intltool-debian set to manually installed. python3-numpy-dev is already the newest version (1:2.4.4+ds-2). python3-numpy-dev set to manually installed. libepoxy0 is already the newest version (1.5.10-2+b2). libepoxy0 set to manually installed. libgl1-mesa-dri is already the newest version (26.0.6-1). libgl1-mesa-dri set to manually installed. liblerc-dev is already the newest version (4.1.0+ds-1). liblerc-dev set to manually installed. libmd0 is already the newest version (1.1.0-2+b2). python3-ufolib2 is already the newest version (0.18.1+dfsg1-1). python3-ufolib2 set to manually installed. libc-dev-bin is already the newest version (2.42-15). libc-dev-bin set to manually installed. mesa-libgallium is already the newest version (26.0.6-1). mesa-libgallium set to manually installed. xz-utils is already the newest version (5.8.3-1). xz-utils set to manually installed. python3-numpy is already the newest version (1:2.4.4+ds-2). python3-numpy set to manually installed. perl is already the newest version (5.40.1-7+b1). perl set to manually installed. libboost-serialization1.90-dev is already the newest version (1.90.0-6). libboost-serialization1.90-dev set to manually installed. libngtcp2-crypto-gnutls8 is already the newest version (1.22.1-1). libngtcp2-crypto-gnutls8 set to manually installed. libboost-date-time1.90.0 is already the newest version (1.90.0-6). libboost-date-time1.90.0 set to manually installed. libcc1-0 is already the newest version (16-20260425-1). libcc1-0 set to manually installed. glycin-loaders is already the newest version (2.0.8-1). glycin-loaders set to manually installed. scons is already the newest version (4.10.1+dfsg-2). scons set to manually installed. python3-pyqt5 is already the newest version (5.15.11+dfsg-4). python3-pyqt5 set to manually installed. libpkgconf7 is already the newest version (2.5.1-4). libpkgconf7 set to manually installed. libxcb1 is already the newest version (1.17.0-2+b2). libxcb1 set to manually installed. libtk8.6 is already the newest version (8.6.17-1+b2). libtk8.6 set to manually installed. libopengl-dev is already the newest version (1.7.0-3+b1). libopengl-dev set to manually installed. libxcb-randr0 is already the newest version (1.17.0-2+b2). libxcb-randr0 set to manually installed. python3-hatchling is already the newest version (1.29.0-1). python3-hatchling set to manually installed. libsvtav1enc4 is already the newest version (4.1.0+dfsg-1). libsvtav1enc4 set to manually installed. libisl23 is already the newest version (0.27-2). libisl23 set to manually installed. libxcb-icccm4 is already the newest version (0.4.2-1+b2). libxcb-icccm4 set to manually installed. python3-pluggy is already the newest version (1.6.0-2). python3-pluggy set to manually installed. dh-python is already the newest version (7.20260309). dh-python set to manually installed. binutils-x86-64-linux-gnu is already the newest version (2.46-3). binutils-x86-64-linux-gnu set to manually installed. bsdextrautils is already the newest version (2.42-6). bsdextrautils set to manually installed. libpcre2-32-0 is already the newest version (10.46-1+b2). libpcre2-32-0 set to manually installed. grep is already the newest version (3.12-1). libgnutls30t64 is already the newest version (3.8.13-1). libgnutls30t64 set to manually installed. python3-tqdm is already the newest version (4.67.3-1). python3-tqdm set to manually installed. libboost-serialization1.90.0 is already the newest version (1.90.0-6). libboost-serialization1.90.0 set to manually installed. libnettle8t64 is already the newest version (3.10.2-1+b1). libnettle8t64 set to manually installed. libxdamage1 is already the newest version (1:1.1.7-1+b1). libxdamage1 set to manually installed. m4 is already the newest version (1.4.21-1). m4 set to manually installed. libngtcp2-crypto-ossl0 is already the newest version (1.22.1-1). libngtcp2-crypto-ossl0 set to manually installed. gcc-15 is already the newest version (15.2.0-17). gcc-15 set to manually installed. libboost-test1.90.0 is already the newest version (1.90.0-6). libboost-test1.90.0 set to manually installed. libmunge2 is already the newest version (0.5.18-1). libmunge2 set to manually installed. bubblewrap is already the newest version (0.11.2-1). bubblewrap set to manually installed. libglu1-mesa is already the newest version (9.0.2-1.1+b4). libglu1-mesa set to manually installed. libxxhash-dev is already the newest version (0.8.3-2+b2). libxxhash-dev set to manually installed. libldap-dev is already the newest version (2.6.10+dfsg-1+b2). libldap-dev set to manually installed. libzstd-dev is already the newest version (1.5.7+dfsg-3+b2). libzstd-dev set to manually installed. libgprofng0 is already the newest version (2.46-3). libgprofng0 set to manually installed. dwz is already the newest version (0.16-4). dwz set to manually installed. libsystemd0 is already the newest version (260.1-1). python3-pymol is already the newest version (3.1.0+dfsg-1+b3). python3-pymol set to manually installed. libxcb-render-util0 is already the newest version (0.3.10-1+b2). libxcb-render-util0 set to manually installed. liblzf1 is already the newest version (3.6-4+b4). liblzf1 set to manually installed. libavahi-client3 is already the newest version (0.8-18). libavahi-client3 set to manually installed. libsensors5 is already the newest version (1:3.6.2-2+b2). libsensors5 set to manually installed. fontconfig-config is already the newest version (2.17.1-5). fontconfig-config set to manually installed. libcap-ng0 is already the newest version (0.9.3-1). fonts-urw-base35 is already the newest version (20200910-9). fonts-urw-base35 set to manually installed. python3-six is already the newest version (1.17.0-2). python3-six set to manually installed. libjansson4 is already the newest version (2.14-2+b4). libjansson4 set to manually installed. cpp-15-x86-64-linux-gnu is already the newest version (15.2.0-17). cpp-15-x86-64-linux-gnu set to manually installed. libngtcp2-crypto-ossl-dev is already the newest version (1.22.1-1). libngtcp2-crypto-ossl-dev set to manually installed. python3-uharfbuzz is already the newest version (0.53.3-1+b1). python3-uharfbuzz set to manually installed. libfontenc1 is already the newest version (1:1.1.8-1+b3). libfontenc1 set to manually installed. debconf is already the newest version (1.5.92). python3-reportlab is already the newest version (4.4.10-1). python3-reportlab set to manually installed. libsqlite3-0 is already the newest version (3.46.1-9+b1). libsqlite3-0 set to manually installed. libdrm2 is already the newest version (2.4.131-1+b1). libdrm2 set to manually installed. libdav1d7 is already the newest version (1.5.3-1+b2). libdav1d7 set to manually installed. libimagequant0 is already the newest version (4.4.1-1+b2). libimagequant0 set to manually installed. libheif-plugin-dav1d is already the newest version (1.21.2-4). libheif-plugin-dav1d set to manually installed. libheif1 is already the newest version (1.21.2-4). libheif1 set to manually installed. zlib1g is already the newest version (1:1.3.dfsg+really1.3.2-3). libamd-comgr3 is already the newest version (7.0.2+dfsg-3). libamd-comgr3 set to manually installed. libaec-dev is already the newest version (1.1.6-1). libaec-dev set to manually installed. libmount1 is already the newest version (2.42-6). python3-matplotlib is already the newest version (3.10.7+dfsg1-3). python3-matplotlib set to manually installed. python3-pil is already the newest version (12.2.0-1). python3-pil set to manually installed. libasan8 is already the newest version (16-20260425-1). libasan8 set to manually installed. libqt5help5 is already the newest version (5.15.17-4+b1). libqt5help5 set to manually installed. libqt5xml5t64 is already the newest version (5.15.17+dfsg-8). libqt5xml5t64 set to manually installed. fftw-dev is already the newest version (2.1.5-8). fftw-dev set to manually installed. libibverbs1 is already the newest version (63.0-1). libibverbs1 set to manually installed. libinput10 is already the newest version (1.31.1-1). libinput10 set to manually installed. libctf0 is already the newest version (2.46-3). libctf0 set to manually installed. libnotify4 is already the newest version (0.8.8-1+b1). libnotify4 set to manually installed. libssm-dev is already the newest version (1.4.0-2+b4). libssm-dev set to manually installed. libhwasan0 is already the newest version (16-20260425-1). libhwasan0 set to manually installed. shared-mime-info is already the newest version (2.4-5+b3). shared-mime-info set to manually installed. libattr1 is already the newest version (1:2.5.2-4). libgdk-pixbuf2.0-common is already the newest version (2.44.6+dfsg-2). libgdk-pixbuf2.0-common set to manually installed. libgdbm-compat4t64 is already the newest version (1.26-1+b2). libgdbm-compat4t64 set to manually installed. python3.13-minimal is already the newest version (3.13.12-1). python3.13-minimal set to manually installed. python3-pathspec is already the newest version (1.0.4-1). python3-pathspec set to manually installed. libpython3.13-minimal is already the newest version (3.13.12-1). libpython3.13-minimal set to manually installed. libmagic1t64 is already the newest version (1:5.46-5+b2). libmagic1t64 set to manually installed. libgmp-dev is already the newest version (2:6.3.0+dfsg-5+b2). libgmp-dev set to manually installed. diffutils is already the newest version (1:3.12-1). libpython3.14-dev is already the newest version (3.14.5~rc1-1). libpython3.14-dev set to manually installed. fonts-font-awesome is already the newest version (5.0.10+really4.7.0~dfsg-4.1). fonts-font-awesome set to manually installed. libxdmcp-dev is already the newest version (1:1.1.5-2+b1). libxdmcp-dev set to manually installed. libxml2-16 is already the newest version (2.15.2+dfsg-0.1). libxml2-16 set to manually installed. perl-modules-5.40 is already the newest version (5.40.1-7). perl-modules-5.40 set to manually installed. libfreetype6 is already the newest version (2.14.3+dfsg-1). libfreetype6 set to manually installed. libxau6 is already the newest version (1:1.0.11-1+b2). libxau6 set to manually installed. libccp4-data is already the newest version (8.0.0-5). libccp4-data set to manually installed. libglx-mesa0 is already the newest version (26.0.6-1). libglx-mesa0 set to manually installed. gcc-15-base is already the newest version (15.2.0-17). gcc-15-base set to manually installed. libboost-timer1.90-dev is already the newest version (1.90.0-6). libboost-timer1.90-dev set to manually installed. libfile-stripnondeterminism-perl is already the newest version (1.15.0-1). libfile-stripnondeterminism-perl set to manually installed. libpython3.13-dev is already the newest version (3.13.12-1). libpython3.13-dev set to manually installed. libngtcp2-16 is already the newest version (1.22.1-1). libngtcp2-16 set to manually installed. libudev1 is already the newest version (260.1-1). libfftw3-bin is already the newest version (3.3.10-2+b2). libfftw3-bin set to manually installed. libwxgtk3.2-1t64 is already the newest version (3.2.9+dfsg-1+b1). libwxgtk3.2-1t64 set to manually installed. libgmp10 is already the newest version (2:6.3.0+dfsg-5+b2). libibumad3 is already the newest version (63.0-1). libibumad3 set to manually installed. libpopt0 is already the newest version (1.19+dfsg-2+b2). libpopt0 set to manually installed. python3-lz4 is already the newest version (4.4.5+dfsg-1). python3-lz4 set to manually installed. libhdf5-cpp-310 is already the newest version (1.14.6+repack-2+b1). libhdf5-cpp-310 set to manually installed. libwebpmux3 is already the newest version (1.5.0-0.1+b2). libwebpmux3 set to manually installed. libsasl2-2 is already the newest version (2.1.28+dfsg1-11). libsasl2-2 set to manually installed. libxau-dev is already the newest version (1:1.0.11-1+b2). libxau-dev set to manually installed. libsframe3 is already the newest version (2.46-3). libsframe3 set to manually installed. libann-cctbx-dev is already the newest version (1.1.2+doc-9+b1). libann-cctbx-dev set to manually installed. libnghttp2-14 is already the newest version (1.69.0-1). libnghttp2-14 set to manually installed. base-passwd is already the newest version (3.6.8). openssl-provider-legacy is already the newest version (3.6.2-1). python3.14-minimal is already the newest version (3.14.5~rc1-1). python3.14-minimal set to manually installed. libopenjp2-7 is already the newest version (2.5.4-1.1). libopenjp2-7 set to manually installed. python3-editables is already the newest version (0.5-3). python3-editables set to manually installed. gettext-base is already the newest version (0.23.2-2). gettext-base set to manually installed. sgml-base is already the newest version (1.31+nmu1). sgml-base set to manually installed. python3-requests is already the newest version (2.32.5+dfsg-1). python3-requests set to manually installed. libpython3-dev is already the newest version (3.13.9-3+b1). libpython3-dev set to manually installed. libglew2.3 is already the newest version (2.3.1-6). libglew2.3 set to manually installed. autotools-dev is already the newest version (20240727.1+nmu1). autotools-dev set to manually installed. python3-flexparser is already the newest version (0.4-2). python3-flexparser set to manually installed. libeigen3-dev is already the newest version (3.4.0-5). libeigen3-dev set to manually installed. libogg0 is already the newest version (1.3.6-2+b1). libogg0 set to manually installed. libasound2t64 is already the newest version (1.2.15.3-1+b1). libasound2t64 set to manually installed. libglx-dev is already the newest version (1.7.0-3+b1). libglx-dev set to manually installed. python3-brotli is already the newest version (1.2.0-3). python3-brotli set to manually installed. libgssrpc4t64 is already the newest version (1.22.1-2+b1). libgssrpc4t64 set to manually installed. libevent-2.1-7t64 is already the newest version (2.1.12-stable-10+b2). libevent-2.1-7t64 set to manually installed. libfftw3-long3 is already the newest version (3.3.10-2+b2). libfftw3-long3 set to manually installed. python3-sympy is already the newest version (1.14.0-3). python3-sympy set to manually installed. libsensors-config is already the newest version (1:3.6.2-2). libsensors-config set to manually installed. libxkbcommon-x11-0 is already the newest version (1.13.1-1). libxkbcommon-x11-0 set to manually installed. python3-all-dev is already the newest version (3.13.9-3+b1). python3-all-dev set to manually installed. libnghttp3-dev is already the newest version (1.15.0-1). libnghttp3-dev set to manually installed. gtk-update-icon-cache is already the newest version (4.22.3+ds-1). gtk-update-icon-cache set to manually installed. libbsd0 is already the newest version (0.12.2-2+b2). libbsd0 set to manually installed. systemd is already the newest version (260.1-1). systemd set to manually installed. xml-core is already the newest version (0.20). xml-core set to manually installed. python3-certifi is already the newest version (2026.4.22+ds-1). python3-certifi set to manually installed. libboost-exception1.90-dev is already the newest version (1.90.0-6). libboost-exception1.90-dev set to manually installed. libxcursor1 is already the newest version (1:1.2.3-1+b2). libxcursor1 set to manually installed. autoconf is already the newest version (2.72-6). autoconf set to manually installed. libasound2-data is already the newest version (1.2.15.3-1). libasound2-data set to manually installed. liblcms2-2 is already the newest version (2.19.1-1). liblcms2-2 set to manually installed. python3-zopfli is already the newest version (0.4.1-1). python3-zopfli set to manually installed. libboost-numpy1.90-dev is already the newest version (1.90.0-6). libboost-numpy1.90-dev set to manually installed. libitm1 is already the newest version (16-20260425-1). libitm1 set to manually installed. libxcomposite1 is already the newest version (1:0.4.6-1+b2). libxcomposite1 set to manually installed. libngtcp2-dev is already the newest version (1.22.1-1). libngtcp2-dev set to manually installed. libarchive-zip-perl is already the newest version (1.68-1). libarchive-zip-perl set to manually installed. libicu78 is already the newest version (78.3-1). libicu78 set to manually installed. libucc1 is already the newest version (1.7.0~rc1-1). libucc1 set to manually installed. libzopfli1 is already the newest version (1.0.3-3). libzopfli1 set to manually installed. libcloudproviders0 is already the newest version (0.4.0-2+b1). libcloudproviders0 set to manually installed. python3-pyproject-hooks is already the newest version (1.2.0-1). python3-pyproject-hooks set to manually installed. libqt5widgets5t64 is already the newest version (5.15.17+dfsg-8). libqt5widgets5t64 set to manually installed. python3-charset-normalizer is already the newest version (3.4.7-1). python3-charset-normalizer set to manually installed. libde265-0 is already the newest version (1.0.18-1). libde265-0 set to manually installed. libkadm5clnt-mit12 is already the newest version (1.22.1-2+b1). libkadm5clnt-mit12 set to manually installed. python3-cairo is already the newest version (1.27.0-2+b1). python3-cairo set to manually installed. hostname is already the newest version (3.25). libc6 is already the newest version (2.42-15). libpulse0 is already the newest version (17.0+dfsg1-2.1+b1). libpulse0 set to manually installed. libxcb-present0 is already the newest version (1.17.0-2+b2). libxcb-present0 set to manually installed. man-db is already the newest version (2.13.1-1). man-db set to manually installed. libpng16-16t64 is already the newest version (1.6.58-1). libpng16-16t64 set to manually installed. libjq1 is already the newest version (1.8.1-5). libjq1 set to manually installed. libcairo-gobject2 is already the newest version (1.18.4-3+b1). libcairo-gobject2 set to manually installed. libdb5.3t64 is already the newest version (5.3.28+dfsg2-11+b1). libuuid1 is already the newest version (2.42-6). libseccomp2 is already the newest version (2.6.0-2+b1). libseccomp2 set to manually installed. libxfixes3 is already the newest version (1:6.0.0-2+b5). libxfixes3 set to manually installed. libboost-atomic1.90-dev is already the newest version (1.90.0-6). libboost-atomic1.90-dev set to manually installed. cpp-15 is already the newest version (15.2.0-17). cpp-15 set to manually installed. libmd4c0 is already the newest version (0.5.2-2+b2). libmd4c0 set to manually installed. libxdmcp6 is already the newest version (1:1.1.5-2+b1). libxdmcp6 set to manually installed. libssm2 is already the newest version (1.4.0-2+b4). libssm2 set to manually installed. libwxgtk-gl3.2-1t64 is already the newest version (3.2.9+dfsg-1+b1). libwxgtk-gl3.2-1t64 set to manually installed. libgdbm6t64 is already the newest version (1.26-1+b2). libgdbm6t64 set to manually installed. python3-rlpycairo is already the newest version (0.3.0-4). python3-rlpycairo set to manually installed. libbrotli-dev is already the newest version (1.2.0-3). libbrotli-dev set to manually installed. libdecor-0-0 is already the newest version (0.2.5-1+b1). libdecor-0-0 set to manually installed. libwayland-cursor0 is already the newest version (1.24.0-2+b2). libwayland-cursor0 set to manually installed. rpcsvc-proto is already the newest version (1.4.3-1). rpcsvc-proto set to manually installed. libsharpyuv-dev is already the newest version (1.5.0-0.1+b2). libsharpyuv-dev set to manually installed. libxcb-sync1 is already the newest version (1.17.0-2+b2). libxcb-sync1 set to manually installed. libcurl4t64 is already the newest version (8.20.0-1). libcurl4t64 set to manually installed. libx11-data is already the newest version (2:1.8.13-1). libx11-data set to manually installed. bzip2 is already the newest version (1.0.8-6+b2). bzip2 set to manually installed. libice6 is already the newest version (2:1.1.1-1+b2). libice6 set to manually installed. libboost-date-time1.90-dev is already the newest version (1.90.0-6). libboost-date-time1.90-dev set to manually installed. libcolord2 is already the newest version (1.4.8-3). libcolord2 set to manually installed. libaom3 is already the newest version (3.13.1-2+b1). libaom3 set to manually installed. libwebpdecoder3 is already the newest version (1.5.0-0.1+b2). libwebpdecoder3 set to manually installed. x11-common is already the newest version (1:7.7+26). x11-common set to manually installed. libgssapi-krb5-2 is already the newest version (1.22.1-2+b1). libgssapi-krb5-2 set to manually installed. libpython3.14 is already the newest version (3.14.5~rc1-1). libpython3.14 set to manually installed. libboost-dev is already the newest version (1.90.0.2). libboost-dev set to manually installed. libgtk-3-common is already the newest version (3.24.52-1). libgtk-3-common set to manually installed. python3-iniconfig is already the newest version (2.1.0-2). python3-iniconfig set to manually installed. python3-packaging is already the newest version (26.0-1). python3-packaging set to manually installed. procps is already the newest version (2:4.0.4-9+b2). procps set to manually installed. xtrans-dev is already the newest version (1.6.0-1). xtrans-dev set to manually installed. python3-pyqt5.sip is already the newest version (12.18.0-1). python3-pyqt5.sip set to manually installed. libxcb-render0 is already the newest version (1.17.0-2+b2). libxcb-render0 set to manually installed. libboost-graph1.90.0 is already the newest version (1.90.0-6). libboost-graph1.90.0 set to manually installed. libboost-timer1.90.0 is already the newest version (1.90.0-6). libboost-timer1.90.0 set to manually installed. libgcrypt20 is already the newest version (1.12.2-1). libgcrypt20 set to manually installed. libc-bin is already the newest version (2.42-15). bash is already the newest version (5.3-3). libpython3-stdlib is already the newest version (3.13.9-3+b1). libpython3-stdlib set to manually installed. zlib1g-dev is already the newest version (1:1.3.dfsg+really1.3.2-3). zlib1g-dev set to manually installed. python3-autocommand is already the newest version (2.2.2-4). python3-autocommand set to manually installed. liblapack3 is already the newest version (3.12.1-7+b2). liblapack3 set to manually installed. libboost-timer-dev is already the newest version (1.90.0.2). libboost-timer-dev set to manually installed. libglvnd0 is already the newest version (1.7.0-3+b1). libglvnd0 set to manually installed. g++-15-x86-64-linux-gnu is already the newest version (15.2.0-17). g++-15-x86-64-linux-gnu set to manually installed. libpciaccess0 is already the newest version (0.17-3+b4). libpciaccess0 set to manually installed. libhdf5-310 is already the newest version (1.14.6+repack-2+b1). libhdf5-310 set to manually installed. libboost-chrono1.90-dev is already the newest version (1.90.0-6). libboost-chrono1.90-dev set to manually installed. libssh2-1t64 is already the newest version (1.11.1-2). libssh2-1t64 set to manually installed. findutils is already the newest version (4.10.0-4). python3-opengl is already the newest version (3.1.10+dfsg-1). python3-opengl set to manually installed. libpython3.14-stdlib is already the newest version (3.14.5~rc1-1). libpython3.14-stdlib set to manually installed. python3-pyqt5.qtopengl is already the newest version (5.15.11+dfsg-4). python3-pyqt5.qtopengl set to manually installed. tar is already the newest version (1.35+dfsg-4). libpam-runtime is already the newest version (1.7.0-5). libsasl2-modules-db is already the newest version (2.1.28+dfsg1-11). libsasl2-modules-db set to manually installed. pkgconf is already the newest version (2.5.1-4). pkgconf set to manually installed. python3-platformdirs is already the newest version (4.9.6-1). python3-platformdirs set to manually installed. libevdev2 is already the newest version (1.13.6+dfsg-2). libevdev2 set to manually installed. liblz4-dev is already the newest version (1.10.0-10). liblz4-dev set to manually installed. libbrotli1 is already the newest version (1.2.0-3). libbrotli1 set to manually installed. libdeflate0 is already the newest version (1.23-2+b2). libdeflate0 set to manually installed. libwebp-dev is already the newest version (1.5.0-0.1+b2). libwebp-dev set to manually installed. x11proto-dev is already the newest version (2025.1-1). x11proto-dev set to manually installed. libdatrie1 is already the newest version (0.2.14-1+b1). libdatrie1 set to manually installed. dash is already the newest version (0.5.12-12). python3-attr is already the newest version (26.1.0-1). python3-attr set to manually installed. The following NEW packages will be installed: pkg-config 127.0.0.1 - - [16/May/2026 13:10:27] "GET /./pkg-config_2.5.1-4_amd64.deb HTTP/1.1" 200 - 0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. Need to get 18.1 kB of archives. After this operation, 34.8 kB of additional disk space will be used. Get:1 http://localhost:44001 ./ pkg-config 2.5.1-4 [18.1 kB] Fetched 18.1 kB in 0s (0 B/s) Chrooting into /srv/rebuilderd/tmp/mmdebstrap.PcrMKN0hxx/ Selecting previously unselected package pkg-config:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 65376 files and directories currently installed.) Preparing to unpack .../pkg-config_2.5.1-4_amd64.deb ... Unpacking pkg-config:amd64 (2.5.1-4) ... Chrooting into /srv/rebuilderd/tmp/mmdebstrap.PcrMKN0hxx/ Setting up pkg-config:amd64 (2.5.1-4) ... I: running --customize-hook in shell: sh -c 'chroot "$1" dpkg -r debootsnap-dummy' exec /srv/rebuilderd/tmp/mmdebstrap.PcrMKN0hxx (Reading database ... 65381 files and directories currently installed.) Removing debootsnap-dummy (1.0) ... I: running --customize-hook in shell: sh -c 'chroot "$1" dpkg-query --showformat '${binary:Package}=${Version}\n' --show > "$1/pkglist"' exec /srv/rebuilderd/tmp/mmdebstrap.PcrMKN0hxx I: running special hook: download /pkglist ./pkglist I: running --customize-hook in shell: sh -c 'rm "$1/pkglist"' exec /srv/rebuilderd/tmp/mmdebstrap.PcrMKN0hxx I: running special hook: upload sources.list /etc/apt/sources.list I: waiting for background processes to finish... I: cleaning package lists and apt cache... I: skipping cleanup/reproducible as requested I: creating tarball... I: done I: removing tempdir /srv/rebuilderd/tmp/mmdebstrap.PcrMKN0hxx... I: success in 253.6406 seconds Downloading dependency 630 of 688: libbrotli-dev:amd64=1.2.0-3 Downloading dependency 631 of 688: libdecor-0-0:amd64=0.2.5-1+b1 Downloading dependency 632 of 688: libwayland-cursor0:amd64=1.24.0-2+b2 Downloading dependency 633 of 688: rpcsvc-proto:amd64=1.4.3-1 Downloading dependency 634 of 688: libsharpyuv-dev:amd64=1.5.0-0.1+b2 Downloading dependency 635 of 688: libxcb-sync1:amd64=1.17.0-2+b2 Downloading dependency 636 of 688: libcurl4t64:amd64=8.20.0-1 Downloading dependency 637 of 688: libx11-data:amd64=2:1.8.13-1 Downloading dependency 638 of 688: bzip2:amd64=1.0.8-6+b2 Downloading dependency 639 of 688: libice6:amd64=2:1.1.1-1+b2 Downloading dependency 640 of 688: libboost-date-time1.90-dev:amd64=1.90.0-6 Downloading dependency 641 of 688: libcolord2:amd64=1.4.8-3 Downloading dependency 642 of 688: libaom3:amd64=3.13.1-2+b1 Downloading dependency 643 of 688: libwebpdecoder3:amd64=1.5.0-0.1+b2 Downloading dependency 644 of 688: x11-common:amd64=1:7.7+26 Downloading dependency 645 of 688: libgssapi-krb5-2:amd64=1.22.1-2+b1 Downloading dependency 646 of 688: libpython3.14:amd64=3.14.5~rc1-1 Downloading dependency 647 of 688: libboost-dev:amd64=1.90.0.2 Downloading dependency 648 of 688: libgtk-3-common:amd64=3.24.52-1 Downloading dependency 649 of 688: python3-iniconfig:amd64=2.1.0-2 Downloading dependency 650 of 688: python3-packaging:amd64=26.0-1 Downloading dependency 651 of 688: procps:amd64=2:4.0.4-9+b2 Downloading dependency 652 of 688: xtrans-dev:amd64=1.6.0-1 Downloading dependency 653 of 688: python3-pyqt5.sip:amd64=12.18.0-1 Downloading dependency 654 of 688: libxcb-render0:amd64=1.17.0-2+b2 Downloading dependency 655 of 688: libboost-graph1.90.0:amd64=1.90.0-6 Downloading dependency 656 of 688: libboost-timer1.90.0:amd64=1.90.0-6 Downloading dependency 657 of 688: libgcrypt20:amd64=1.12.2-1 Downloading dependency 658 of 688: libc-bin:amd64=2.42-15 Downloading dependency 659 of 688: bash:amd64=5.3-3 Downloading dependency 660 of 688: libpython3-stdlib:amd64=3.13.9-3+b1 Downloading dependency 661 of 688: zlib1g-dev:amd64=1:1.3.dfsg+really1.3.2-3 Downloading dependency 662 of 688: python3-autocommand:amd64=2.2.2-4 Downloading dependency 663 of 688: liblapack3:amd64=3.12.1-7+b2 Downloading dependency 664 of 688: libboost-timer-dev:amd64=1.90.0.2 Downloading dependency 665 of 688: libglvnd0:amd64=1.7.0-3+b1 Downloading dependency 666 of 688: g++-15-x86-64-linux-gnu:amd64=15.2.0-17 Downloading dependency 667 of 688: libpciaccess0:amd64=0.17-3+b4 Downloading dependency 668 of 688: libhdf5-310:amd64=1.14.6+repack-2+b1 Downloading dependency 669 of 688: libboost-chrono1.90-dev:amd64=1.90.0-6 Downloading dependency 670 of 688: libssh2-1t64:amd64=1.11.1-2 Downloading dependency 671 of 688: findutils:amd64=4.10.0-4 Downloading dependency 672 of 688: python3-opengl:amd64=3.1.10+dfsg-1 Downloading dependency 673 of 688: libpython3.14-stdlib:amd64=3.14.5~rc1-1 Downloading dependency 674 of 688: python3-pyqt5.qtopengl:amd64=5.15.11+dfsg-4 Downloading dependency 675 of 688: tar:amd64=1.35+dfsg-4 Downloading dependency 676 of 688: libpam-runtime:amd64=1.7.0-5 Downloading dependency 677 of 688: libsasl2-modules-db:amd64=2.1.28+dfsg1-11 Downloading dependency 678 of 688: pkgconf:amd64=2.5.1-4 Downloading dependency 679 of 688: python3-platformdirs:amd64=4.9.6-1 Downloading dependency 680 of 688: libevdev2:amd64=1.13.6+dfsg-2 Downloading dependency 681 of 688: liblz4-dev:amd64=1.10.0-10 Downloading dependency 682 of 688: libbrotli1:amd64=1.2.0-3 Downloading dependency 683 of 688: libdeflate0:amd64=1.23-2+b2 Downloading dependency 684 of 688: libwebp-dev:amd64=1.5.0-0.1+b2 Downloading dependency 685 of 688: x11proto-dev:amd64=2025.1-1 Downloading dependency 686 of 688: libdatrie1:amd64=0.2.14-1+b1 Downloading dependency 687 of 688: dash:amd64=0.5.12-12 Downloading dependency 688 of 688: python3-attr:amd64=26.1.0-1 env --chdir=/srv/rebuilderd/tmp/rebuilderdRtDovd/out DEB_BUILD_OPTIONS=parallel=6 LANG=C.UTF-8 LC_COLLATE=C.UTF-8 LC_CTYPE=C.UTF-8 SOURCE_DATE_EPOCH=1778336580 SBUILD_CONFIG=/srv/rebuilderd/tmp/debrebuildZaR5oZ/debrebuild.sbuildrc._B1KT8JQOaCr sbuild --build=amd64 --host=amd64 --arch-any --no-arch-all --chroot=/srv/rebuilderd/tmp/debrebuildZaR5oZ/debrebuild.tar.P53hkQwGiQDd --chroot-mode=unshare --dist=unstable --no-run-lintian --no-run-piuparts --no-run-autopkgtest --no-apt-update --no-apt-upgrade --no-apt-distupgrade --no-source --verbose --nolog --bd-uninstallable-explainer= --build-path=/build/reproducible-path --dsc-dir=cctbx-2026.4+ds2+~3.28.0+ds1 /srv/rebuilderd/tmp/rebuilderdRtDovd/inputs/cctbx_2026.4+ds2+~3.28.0+ds1-2.dsc I: consider moving your ~/.sbuildrc to /srv/rebuilderd/.config/sbuild/config.pl The Debian buildds switched to the "unshare" backend and sbuild will default to it in the future. To start using "unshare" add this to your `~/.config/sbuild/config.pl`: $chroot_mode = "unshare"; If you want to keep the old "schroot" mode even in the future, add the following to your `~/.config/sbuild/config.pl`: $chroot_mode = "schroot"; $schroot = "schroot"; sbuild (Debian sbuild) 0.89.3+deb13u4 (28 December 2025) on osuosl44-amd64.novalocal +==============================================================================+ | cctbx 2026.4+ds2+~3.28.0+ds1-2 (amd64) Sat, 16 May 2026 13:10:45 +0000 | +==============================================================================+ Package: cctbx Version: 2026.4+ds2+~3.28.0+ds1-2 Source Version: 2026.4+ds2+~3.28.0+ds1-2 Distribution: unstable Machine Architecture: amd64 Host Architecture: amd64 Build Architecture: amd64 Build Type: any I: No tarballs found in /srv/rebuilderd/.cache/sbuild I: Unpacking /srv/rebuilderd/tmp/debrebuildZaR5oZ/debrebuild.tar.P53hkQwGiQDd to /srv/rebuilderd/tmp/tmp.sbuild.yhYzLPXpnG... I: Setting up the chroot... I: Creating chroot session... I: Setting up log color... I: Setting up apt archive... +------------------------------------------------------------------------------+ | Fetch source files Sat, 16 May 2026 13:10:53 +0000 | +------------------------------------------------------------------------------+ Local sources ------------- /srv/rebuilderd/tmp/rebuilderdRtDovd/inputs/cctbx_2026.4+ds2+~3.28.0+ds1-2.dsc exists in /srv/rebuilderd/tmp/rebuilderdRtDovd/inputs; copying to chroot +------------------------------------------------------------------------------+ | Install package build dependencies Sat, 16 May 2026 13:10:54 +0000 | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: debhelper-compat (= 13), dh-exec, dh-python, dh-sequence-numpy3, dh-sequence-python3, architecture-is-64-bit, jq, libann-cctbx-dev (>= 1.1.2+doc-9~), libantlr3c-dev, libboost-dev, libboost-numpy-dev, libboost-python-dev, libboost-thread-dev, libboost-timer-dev, libcbf-dev (>= 0.9.7+dfsg1-2~), libclipper-dev, libeigen3-dev, libexpat1-dev, libfftw3-dev, libgl-dev, libglu1-mesa-dev, libhdf5-dev, liblz4-dev, libssm-dev, libtiff-dev, libtool, pybind11-dev, pybuild-plugin-pyproject, python3-all-dev:any, python3-biopython, python3-editables, python3-h5py (>= 3), python3-hatchling, python3-hdf5plugin, python3-legacy-cgi, python3-matplotlib, python3-mrcfile, python3-msgpack, python3-natsort, python3-numpy, python3-nxmx, python3-ordered-set, python3-pint, python3-pip, python3-procrunner, python3-psutil, python3-pycbf (>= 0.9.7+dfsg1-2~), python3-pymol, python3-pytest, python3-requests, python3-scipy, python3-setuptools, python3-six, python3-tqdm, python3-wxgtk4.0, rsync, scons, build-essential Filtered Build-Depends: debhelper-compat (= 13), dh-exec, dh-python, dh-sequence-numpy3, dh-sequence-python3, architecture-is-64-bit, jq, libann-cctbx-dev (>= 1.1.2+doc-9~), libantlr3c-dev, libboost-dev, libboost-numpy-dev, libboost-python-dev, libboost-thread-dev, libboost-timer-dev, libcbf-dev (>= 0.9.7+dfsg1-2~), libclipper-dev, libeigen3-dev, libexpat1-dev, libfftw3-dev, libgl-dev, libglu1-mesa-dev, libhdf5-dev, liblz4-dev, libssm-dev, libtiff-dev, libtool, pybind11-dev, pybuild-plugin-pyproject, python3-all-dev:any, python3-biopython, python3-editables, python3-h5py (>= 3), python3-hatchling, python3-hdf5plugin, python3-legacy-cgi, python3-matplotlib, python3-mrcfile, python3-msgpack, python3-natsort, python3-numpy, python3-nxmx, python3-ordered-set, python3-pint, python3-pip, python3-procrunner, python3-psutil, python3-pycbf (>= 0.9.7+dfsg1-2~), python3-pymol, python3-pytest, python3-requests, python3-scipy, python3-setuptools, python3-six, python3-tqdm, python3-wxgtk4.0, rsync, scons, build-essential dpkg-deb: building package 'sbuild-build-depends-main-dummy' in '/build/reproducible-path/resolver-fydhDA/apt_archive/sbuild-build-depends-main-dummy.deb'. Install main build dependencies (apt-based resolver) ---------------------------------------------------- Installing build dependencies +------------------------------------------------------------------------------+ | Check architectures Sat, 16 May 2026 13:10:57 +0000 | +------------------------------------------------------------------------------+ Arch check ok (amd64 included in amd64 arm64 armel armhf i386 loong64 ppc64 ppc64el riscv64 s390x) +------------------------------------------------------------------------------+ | Build environment Sat, 16 May 2026 13:10:57 +0000 | +------------------------------------------------------------------------------+ Kernel: Linux 6.12.88+deb13-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.88-1 (2026-05-15) amd64 (x86_64) Toolchain package versions: binutils_2.46-3 dpkg-dev_1.23.7 g++-15_15.2.0-17 gcc-15_15.2.0-17 libc6-dev_2.42-15 libstdc++-15-dev_15.2.0-17 libstdc++6_16-20260425-1 linux-libc-dev_7.0.3-1 Package versions: adwaita-icon-theme_50.0-1 architecture-properties_0.2.6+b2 at-spi2-common_2.60.3-1 autoconf_2.72-6 automake_1:1.18.1-4 autopoint_0.23.2-2 autotools-dev_20240727.1+nmu1 base-files_14 base-passwd_3.6.8 bash_5.3-3 binutils_2.46-3 binutils-common_2.46-3 binutils-x86-64-linux-gnu_2.46-3 bsdextrautils_2.42-6 bubblewrap_0.11.2-1 build-essential_12.12 bzip2_1.0.8-6+b2 ca-certificates_20260223 comerr-dev_2.1-1.47.4-1 coreutils_9.10-1 cpp_4:15.2.0-5+b1 cpp-15_15.2.0-17 cpp-15-x86-64-linux-gnu_15.2.0-17 cpp-x86-64-linux-gnu_4:15.2.0-5+b1 dash_0.5.12-12 dbus_1.16.2-4 dbus-bin_1.16.2-4 dbus-daemon_1.16.2-4 dbus-session-bus-common_1.16.2-4 dbus-system-bus-common_1.16.2-4 dbus-user-session_1.16.2-4 dconf-gsettings-backend_0.49.0-4+b1 dconf-service_0.49.0-4+b1 debconf_1.5.92 debhelper_13.31 debianutils_5.23.2 dh-autoreconf_22 dh-exec_0.31 dh-python_7.20260309 dh-strip-nondeterminism_1.15.0-1 diffutils_1:3.12-1 dpkg_1.23.7 dpkg-dev_1.23.7 dwz_0.16-4 fftw-dev_2.1.5-8 fftw2_2.1.5-8 file_1:5.46-5+b2 findutils_4.10.0-4 fontconfig_2.17.1-5 fontconfig-config_2.17.1-5 fonts-dejavu-core_2.37-9 fonts-dejavu-extra_2.37-9 fonts-dejavu-mono_2.37-9 fonts-font-awesome_5.0.10+really4.7.0~dfsg-4.1 fonts-lato_2.015-1 fonts-lyx_2.5.1-1 fonts-urw-base35_20200910-9 g++_4:15.2.0-5+b1 g++-15_15.2.0-17 g++-15-x86-64-linux-gnu_15.2.0-17 g++-x86-64-linux-gnu_4:15.2.0-5+b1 gcc_4:15.2.0-5+b1 gcc-15_15.2.0-17 gcc-15-base_15.2.0-17 gcc-15-x86-64-linux-gnu_15.2.0-17 gcc-16-base_16-20260425-1 gcc-x86-64-linux-gnu_4:15.2.0-5+b1 gettext_0.23.2-2 gettext-base_0.23.2-2 glycin-loaders_2.0.8-1 glycin-thumbnailers_2.0.8-1 grep_3.12-1 groff-base_1.24.1-1 gtk-update-icon-cache_4.22.3+ds-1 gzip_1.13-1 hdf5-helpers_1.14.6+repack-2+b1 hicolor-icon-theme_0.18-2 hostname_3.25 ibverbs-providers_63.0-1 init-system-helpers_1.69 intltool-debian_0.35.0+20060710.6 jq_1.8.1-5 krb5-multidev_1.22.1-2+b1 libabsl20260107_20260107.0-5 libacl1_2.3.2-3 libaec-dev_1.1.6-1 libaec0_1.1.6-1 libamd-comgr3_7.0.2+dfsg-3 libamdhip64-6_6.4.3-5 libann-cctbx-dev_1.1.2+doc-9+b1 libann-cctbx0_1.1.2+doc-9+b1 libantlr3c-3.4-0_3.4+dfsg-4+b3 libantlr3c-dev_3.4+dfsg-4+b3 libaom3_3.13.1-2+b1 libapparmor1_4.1.7-2 libarchive-zip-perl_1.68-1 libasan8_16-20260425-1 libasound2-data_1.2.15.3-1 libasound2t64_1.2.15.3-1+b1 libasyncns0_0.8-7+b2 libatk-bridge2.0-0t64_2.60.3-1 libatk1.0-0t64_2.60.3-1 libatomic1_16-20260425-1 libatspi2.0-0t64_2.60.3-1 libattr1_1:2.5.2-4 libaudit-common_1:4.1.2-1 libaudit1_1:4.1.2-1+b1 libavahi-client3_0.8-18 libavahi-common-data_0.8-18 libavahi-common3_0.8-18 libavif16_1.4.1-1+b1 libbinutils_2.46-3 libblas3_3.12.1-7+b2 libblkid1_2.42-6 libboost-atomic1.90-dev_1.90.0-6 libboost-atomic1.90.0_1.90.0-6 libboost-chrono1.90-dev_1.90.0-6 libboost-chrono1.90.0_1.90.0-6 libboost-container1.90-dev_1.90.0-6 libboost-container1.90.0_1.90.0-6 libboost-date-time1.90-dev_1.90.0-6 libboost-date-time1.90.0_1.90.0-6 libboost-dev_1.90.0.2 libboost-exception1.90-dev_1.90.0-6 libboost-graph1.90-dev_1.90.0-6 libboost-graph1.90.0_1.90.0-6 libboost-numpy-dev_1.90.0.2 libboost-numpy1.90-dev_1.90.0-6 libboost-numpy1.90.0_1.90.0-6 libboost-python-dev_1.90.0.2 libboost-python1.90-dev_1.90.0-6 libboost-python1.90.0_1.90.0-6 libboost-regex1.90-dev_1.90.0-6 libboost-regex1.90.0_1.90.0-6 libboost-serialization1.90-dev_1.90.0-6 libboost-serialization1.90.0_1.90.0-6 libboost-test1.90-dev_1.90.0-6 libboost-test1.90.0_1.90.0-6 libboost-thread-dev_1.90.0.2 libboost-thread1.90-dev_1.90.0-6 libboost-thread1.90.0_1.90.0-6 libboost-timer-dev_1.90.0.2 libboost-timer1.90-dev_1.90.0-6 libboost-timer1.90.0_1.90.0-6 libboost1.90-dev_1.90.0-6 libbrotli-dev_1.2.0-3 libbrotli1_1.2.0-3 libbsd0_0.12.2-2+b2 libbz2-1.0_1.0.8-6+b2 libc-bin_2.42-15 libc-dev-bin_2.42-15 libc-gconv-modules-extra_2.42-15 libc6_2.42-15 libc6-dev_2.42-15 libcairo-gobject2_1.18.4-3+b1 libcairo2_1.18.4-3+b1 libcap-ng0_0.9.3-1 libcap2_1:2.78-1 libcbf-dev_0.9.7+dfsg1-5.1+b1 libcbf1t64_0.9.7+dfsg1-5.1+b1 libcc1-0_16-20260425-1 libccp4-data_8.0.0-5 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xorg-sgml-doctools_1:1.12.1-1 xtrans-dev_1.6.0-1 xz-utils_5.8.3-1 zlib1g_1:1.3.dfsg+really1.3.2-3 zlib1g-dev_1:1.3.dfsg+really1.3.2-3 +------------------------------------------------------------------------------+ | Build Sat, 16 May 2026 13:10:57 +0000 | +------------------------------------------------------------------------------+ Unpack source ------------- -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: cctbx Binary: libcctbx0, libcctbx-dev, python3-cctbx Architecture: amd64 arm64 armel armhf i386 loong64 ppc64 ppc64el riscv64 s390x Version: 2026.4+ds2+~3.28.0+ds1-2 Maintainer: Debian Science Maintainers Uploaders: Picca Frédéric-Emmanuel , Radostan Riedel , Roland Mas , Homepage: https://github.com/cctbx/cctbx_project Standards-Version: 4.7.3 Vcs-Browser: https://salsa.debian.org/science-team/cctbx Vcs-Git: https://salsa.debian.org/science-team/cctbx.git Testsuite: autopkgtest Testsuite-Triggers: bitshuffle, g++, python3-all, python3-dials-data, python3-h5py, python3-pytest, python3-pytest-mock, python3-pytest-regressions Build-Depends: debhelper-compat (= 13), dh-exec, dh-python, dh-sequence-numpy3, dh-sequence-python3, architecture-is-64-bit, jq, libann-cctbx-dev (>= 1.1.2+doc-9~), libantlr3c-dev, libboost-dev, libboost-numpy-dev, libboost-python-dev, libboost-thread-dev, libboost-timer-dev, libcbf-dev (>= 0.9.7+dfsg1-2~), libclipper-dev, libeigen3-dev, libexpat1-dev, libfftw3-dev, libgl-dev, libglu1-mesa-dev, libhdf5-dev, liblz4-dev, libssm-dev, libtiff-dev, libtool, pybind11-dev, pybuild-plugin-pyproject, python3-all-dev:any, python3-biopython , python3-editables, python3-h5py (>= 3) , python3-hatchling, python3-hdf5plugin , python3-legacy-cgi , python3-matplotlib , python3-mrcfile , python3-msgpack , python3-natsort , python3-numpy , python3-nxmx , python3-ordered-set , python3-pint , python3-pip, python3-procrunner , python3-psutil , python3-pycbf (>= 0.9.7+dfsg1-2~) , python3-pymol , python3-pytest , python3-requests , python3-scipy , python3-setuptools, python3-six, python3-tqdm , python3-wxgtk4.0 , rsync, scons Package-List: libcctbx-dev deb libdevel optional arch=amd64,arm64,armel,armhf,i386,loong64,ppc64,ppc64el,riscv64,s390x libcctbx0 deb libs optional arch=amd64,arm64,armel,armhf,i386,loong64,ppc64,ppc64el,riscv64,s390x python3-cctbx deb python optional arch=amd64,arm64,armel,armhf,i386,loong64,ppc64,ppc64el,riscv64,s390x Checksums-Sha1: 5e60d06b89f1699b656b862bdd573e0aa6e9f7e9 389428 cctbx_2026.4+ds2+~3.28.0+ds1.orig-dxtbx.tar.xz 38bd6a6cd30ab14b3625f047c7a2d81bf123d050 104764504 cctbx_2026.4+ds2+~3.28.0+ds1.orig.tar.xz 735ed13f3ed4f0702718293ff838fa9e2fb5bd9b 420028 cctbx_2026.4+ds2+~3.28.0+ds1-2.debian.tar.xz Checksums-Sha256: 4625660418c42cc98744fd97074c7c1f26439a999662b7fddf382e0cc4304940 389428 cctbx_2026.4+ds2+~3.28.0+ds1.orig-dxtbx.tar.xz cd34f3a526d15c3dff4cc4d71eb422e4d1a7db6b6d7dd5a58bf77ac335accb63 104764504 cctbx_2026.4+ds2+~3.28.0+ds1.orig.tar.xz b206ac624b799af58a32d092535caf017f89b784f29c2329af02ecd127d24a18 420028 cctbx_2026.4+ds2+~3.28.0+ds1-2.debian.tar.xz Files: cce155aeff8245950f9b530da21c0a69 389428 cctbx_2026.4+ds2+~3.28.0+ds1.orig-dxtbx.tar.xz 77bf15749d9ae55e8d2a9d2e79184a8d 104764504 cctbx_2026.4+ds2+~3.28.0+ds1.orig.tar.xz 93f6a27f8a00d1a597a7aeff2c22489c 420028 cctbx_2026.4+ds2+~3.28.0+ds1-2.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQIzBAEBCgAdFiEEtBU2D1kett1zr/uD0w3s0lmTIvwFAmn/VlcACgkQ0w3s0lmT IvyyQRAAuXO095dsS9xnqZPsZCZibx4asxp21g3x2z55HOgUCUpwAu28c6NQbxbu ymLkKGn8nZMhBLdZQs2a1AYvahDLH9gWEuwj7jDzh63Q9qwVx04pmII1Rs4EB7FF kQ/OG6Ney5CZ+VvCKealwVWMJdpOq9CU94Rap599uAI2ZvGZ1kfCVa2VdoegeB88 amv7m9NZUFH7i8hOmAGPJb7O7PKBqWP80WgMnQ7H5pJ3UMYjWk59tAngKiOykqXx Ov2kpT5351C5Wx/U2+r33p56tflE2k6vcKO7gls1iZQ4qxC7886/egjAfLeJrdnD kbq9nUJiNHP/ud4A4iRTJzVYQbcWTeCIqu8VKYI4HyW9MtO/Txf0hWcNJMQzLITQ SAMMXunZ6Zl4uB7VFvOnLFuVPTdXqc5WWRpm9rSp5F53CC4B7NYpMqfZzoHJ0wEZ ieJWWayV82QIcJSfKoNBFZrCjzdc3+z843p6otirhWsouvd5H/WIxpoDg897DZpQ 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unpacking cctbx_2026.4+ds2+~3.28.0+ds1-2.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying workaround_env_config.patch dpkg-source: info: applying boost_adaptbx.patch dpkg-source: info: applying reproducible-timestamp.patch dpkg-source: info: applying libtbx_env-per-python-version.patch dpkg-source: info: applying iotbx_with_system_libraries.patch dpkg-source: info: applying 0007-iotbx-mtz-load-ccp4-data-from-the-right-directory.patch dpkg-source: info: applying 0009-scons-soname.patch dpkg-source: info: applying 0010-fix-cbflib_adaptbx-compilation-with-the-system-cbfli.patch dpkg-source: info: applying 0011-dxtbx-use-the-system-libraries.patch dpkg-source: info: applying 0013-dxtbx-do-not-modify-the-HDF5_PLUGIN_PATH.patch dpkg-source: info: applying 0015-dxtbx-adapte-the-boost_python-link-name.patch dpkg-source: info: applying 0016-cctbx-avoid-FTBFS-when-cctbx-is-already-installed.patch dpkg-source: info: applying 0017-cctbx-do-not-hide-sign-comparison.patch dpkg-source: info: applying 0017-dxtbx-fix-for-unsigned-char-arch.patch dpkg-source: info: applying 0016-unactivated-ucif-compilation.patch dpkg-source: info: applying 0017-smtbx-save-the-generated-test-file-under-tmp.patch dpkg-source: info: applying 0018-iotbx-link-with-ccp4c-instead-of-ccp4io.patch dpkg-source: info: applying 0019-cbflib_adapter-link-cbf-private-with-cbf.patch dpkg-source: info: applying 0020-spotfinder-link-with-dxtbxspotfinder.patch dpkg-source: info: applying 0021-rstbx-link-with-ann_adaptor.patch dpkg-source: info: applying 0022-rstbx-link-rstbx_integration_ext-with-ann_adaptor.patch dpkg-source: info: applying 0023-rstbx-use-the-annself_excluded-namespace-from-ann-cc.patch dpkg-source: info: applying 0024-more-ann-ann-cctbx.patch dpkg-source: info: applying 0031-Add-missing-ctdint-header.patch dpkg-source: info: applying 0032-no-future.patch dpkg-source: info: applying 0027-Replace-unmaintained-orderedset-with-ordered_set.patch dpkg-source: info: applying 0028-Fix-pip-invocation.patch dpkg-source: info: applying 0028-dxtbx-force-pathlib-in-data-fetcher.patch dpkg-source: info: applying 0030_broken_six.patch dpkg-source: info: applying 0030-Stop-linking-against-boost_system.patch Check disk space ---------------- Sufficient free space for build User Environment ---------------- APT_CONFIG=/var/lib/sbuild/apt.conf DEB_BUILD_OPTIONS=parallel=6 HOME=/sbuild-nonexistent LANG=C.UTF-8 LC_ALL=C.UTF-8 LC_COLLATE=C.UTF-8 LC_CTYPE=C.UTF-8 LOGNAME=sbuild PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games SHELL=/bin/sh SOURCE_DATE_EPOCH=1778336580 USER=sbuild dpkg-buildpackage ----------------- Command: dpkg-buildpackage --sanitize-env -us -uc -B dpkg-buildpackage: info: source package cctbx dpkg-buildpackage: info: source version 2026.4+ds2+~3.28.0+ds1-2 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Roland Mas dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean --buildsystem=pybuild debian/rules override_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1' cp -f debian/pyproject.toml pyproject.toml cp -r debian/annlib_adaptbx annlib_adaptbx mkdir annlib cp -r debian/ccp4io_adaptbx ccp4io_adaptbx mkdir ccp4io cp -r debian/gui_resources gui_resources dh_auto_clean -- --name cctbx pybuild --clean -i python{version} -p "3.14 3.13" --name cctbx --parallel=6 rm -rf .pybuild/ find . -name \*.pyc -exec rm {} \; dh_auto_clean --sourcedirectory=dxtbx -- --name dxtbx pybuild --clean -i python{version} -p "3.14 3.13" --name dxtbx --dir dxtbx --parallel=6 rm -rf .pybuild/ find . -name \*.pyc -exec rm {} \; find . -name __pycache__ -type d -exec rm -rf {} \; rm -f pyproject.toml rm -rf annlib annlib_adaptbx rm -rf ccp4io ccp4io_adaptbx rm -rf gui_resources make[1]: Leaving directory '/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1' dh_autoreconf_clean -O--buildsystem=pybuild dh_clean -O--buildsystem=pybuild rm -f debian/debhelper-build-stamp rm -rf debian/.debhelper/ rm -f -- debian/libcctbx0.substvars debian/libcctbx-dev.substvars debian/python3-cctbx.substvars debian/files rm -fr -- debian/libcctbx0/ debian/tmp/ debian/libcctbx-dev/ debian/python3-cctbx/ find . \( \( \ \( -path .\*/.git -o -path .\*/.svn -o -path .\*/.bzr -o -path .\*/.hg -o -path .\*/CVS -o -path .\*/.pc -o -path .\*/_darcs \) -prune -o -type f -a \ \( -name '#*#' -o -name '.*~' -o -name '*~' -o -name DEADJOE \ -o -name '*.orig' -o -name '*.rej' -o -name '*.bak' \ -o -name '.*.orig' -o -name .*.rej -o -name '.SUMS' \ -o -name TAGS -o \( -path '*/.deps/*' -a -name '*.P' \) \ \) -exec rm -f {} + \) -o \ \( -type d -a \( -name autom4te.cache -o -name __pycache__ \) -prune -exec rm -rf {} + \) \) debian/rules binary-arch dh binary-arch --buildsystem=pybuild dh_update_autotools_config -a -O--buildsystem=pybuild dh_autoreconf -a -O--buildsystem=pybuild debian/rules override_dh_auto_configure make[1]: Entering directory '/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1' cp -f debian/pyproject.toml pyproject.toml cp -r debian/annlib_adaptbx annlib_adaptbx mkdir annlib cp -r debian/ccp4io_adaptbx ccp4io_adaptbx mkdir ccp4io cp -r debian/gui_resources gui_resources dh_auto_configure -- --name cctbx pybuild --configure -i python{version} -p "3.14 3.13" --name cctbx --parallel=6 dh_auto_configure --sourcedirectory=dxtbx -- --name dxtbx pybuild --configure -i python{version} -p "3.14 3.13" --name dxtbx --dir dxtbx --parallel=6 dh_auto_configure -- --name cctbx -s custom --configure-args="mkdir -p {build_dir}_ && cd {build_dir}_ \ && {interpreter} /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/libtbx/configure.py --build=debug --use_environment_flags --cxxstd=c++14 annlib_adaptbx boost_adaptbx cbflib_adaptbx ccp4io_adaptbx cctbx cma_es crys3d dxtbx fable gltbx iotbx libtbx mmtbx omptbx rstbx scitbx serialtbx smtbx spotfinder tbxx wxtbx annlib ccp4io" pybuild --configure -i python{version} -p "3.14 3.13" --name cctbx -s custom --configure-args="mkdir -p {build_dir}_ && cd {build_dir}_ && {interpreter} /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/libtbx/configure.py --build=debug --use_environment_flags --cxxstd=c++14 annlib_adaptbx boost_adaptbx cbflib_adaptbx ccp4io_adaptbx cctbx cma_es crys3d dxtbx fable gltbx iotbx libtbx mmtbx omptbx rstbx scitbx serialtbx smtbx spotfinder tbxx wxtbx annlib ccp4io" --parallel=6 I: pybuild base:385: mkdir -p '/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build'_ && cd '/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build'_ && python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/libtbx/configure.py --build=debug --use_environment_flags --cxxstd=c++14 annlib_adaptbx boost_adaptbx cbflib_adaptbx ccp4io_adaptbx cctbx cma_es crys3d dxtbx fable gltbx iotbx libtbx mmtbx omptbx rstbx scitbx serialtbx smtbx spotfinder tbxx wxtbx annlib ccp4io Python: 3.14.5rc1 "/usr/bin/python3.14" Compiler: default Build mode: debug Warning level: 0 Precompiled Headers: False Static libraries: False Static exe: False Scan Boost headers: False Write full flex_fwd.h files: False Build Boost.Python extensions: True Define BOOST_PYTHON_NO_PY_SIGNATURES: False Define BOOST_PYTHON_BOOL_INT_STRICT: True Enable OpenMP if possible: False Boost threads enabled: True Enable CUDA: False Enable KOKKOS: False Use conda: False Use opt_resources if available: False Use environment flags: True Enable C++11: False CXXFLAGS = -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 CFLAGS = -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection CPPFLAGS = -Wdate-time -D_FORTIFY_SOURCE=2 LDFLAGS = -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 command_version_suffix: None Relocatable paths anchored at: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_ Top-down list of all modules involved: wxtbx "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/wxtbx" serialtbx "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/serialtbx" rstbx "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx" spotfinder "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder" mmtbx "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx" gltbx "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/gltbx" dxtbx "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx" iotbx "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx" smtbx "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx" ucif "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/ucif" crys3d "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/crys3d" cctbx "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx" chiltbx "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/chiltbx" ccp4io+adaptbx "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/ccp4io" "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/ccp4io_adaptbx" cbflib_adaptbx "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx" annlib+adaptbx "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib" "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx" scitbx "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx" fable "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable" cma_es "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cma_es" omptbx "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/omptbx" boost+adaptbx "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost" "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx" tbxx "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/tbxx" libtbx "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/libtbx" Creating files in build directory: "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_" dispatcher_include_template.sh dispatcher_head.sh setpaths.sh setpaths.csh setpaths_all.sh setpaths_all.csh setpaths_debug.sh unsetpaths.sh setpaths_debug.csh unsetpaths.csh SConstruct Makefile run_tests.csh Processing: "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/libtbx/command_line" Processing: "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/command_line" Processing: "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/command_line" Processing: "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/command_line" Processing: "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx/command_line" Processing: "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/command_line" Processing: "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/crys3d/command_line" Processing: "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/command_line" Processing: "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/command_line" Processing: "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/gltbx/command_line" Processing: "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/command_line" Processing: "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/command_line" Processing: "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/command_line" Processing: "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/wxtbx/command_line" Processing: "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/libtbx/libtbx_refresh.py" Processing: "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/libtbx_refresh.py" Processing: "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/libtbx_refresh.py" Generating C++ header files in: "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include/scitbx/array_family" Generating C++ files in: "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include/scitbx/array_family/boost_python" Using fable to convert scitbx/lbfgs.f Updating entry points for scitbx 1 entries for entry point pytest_randomly.random_seeder Obtaining file:///build/reproducible-path/cctbx-2026.4%2Bds2%2B~3.28.0%2Bds1/dxtbx Checking if build backend supports build_editable: started Checking if build backend supports build_editable: finished with status 'done' Preparing editable metadata (pyproject.toml): started Preparing editable metadata (pyproject.toml): finished with status 'done' Building wheels for collected packages: dxtbx Building editable for dxtbx (pyproject.toml): started Building editable for dxtbx (pyproject.toml): finished with status 'done' Created wheel for dxtbx: filename=dxtbx-3.28.0-py3-none-any.whl size=6893 sha256=abe7ddbeee1170daa14156d83c6a258be214f4605d78bb4536ded8e79a7f59cf Stored in directory: /tmp/pip-ephem-wheel-cache-3o2jjpy3/wheels/fd/e6/f1/5fd32bb1c4c87f39fed3c3c12ab08e4a66ca14b9cf03d04a01 Successfully built dxtbx Installing collected packages: dxtbx Successfully installed dxtbx-3.28.0 Processing: "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/libtbx_refresh.py" Generating C++ files in: "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/cctbx/eltbx" Generating C++ files in: "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include/cctbx/boost_python" Processing: "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/crys3d/libtbx_refresh.py" Processing: "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/libtbx_refresh.py" Generating C++ files in: "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include/smtbx/boost_python" Processing: "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/libtbx_refresh.py" Using fable to convert iotbx/pdb/hybrid_36_f.f Writing: iotbx/pdb/hybrid_36_fem.cpp Processing: "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/libtbx_refresh.py" Processing: "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/gltbx/libtbx_refresh.py" Generating C++ files in: "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/gltbx" fonts: 8x13 9x15 10x20 Processing: "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/libtbx_refresh.py" Done. I: pybuild base:385: mkdir -p '/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build'_ && cd '/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build'_ && python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/libtbx/configure.py --build=debug --use_environment_flags --cxxstd=c++14 annlib_adaptbx boost_adaptbx cbflib_adaptbx ccp4io_adaptbx cctbx cma_es crys3d dxtbx fable gltbx iotbx libtbx mmtbx omptbx rstbx scitbx serialtbx smtbx spotfinder tbxx wxtbx annlib ccp4io Python: 3.13.12 "/usr/bin/python3.13" Compiler: default Build mode: debug Warning level: 0 Precompiled Headers: False Static libraries: False Static exe: False Scan Boost headers: False Write full flex_fwd.h files: False Build Boost.Python extensions: True Define BOOST_PYTHON_NO_PY_SIGNATURES: False Define BOOST_PYTHON_BOOL_INT_STRICT: True Enable OpenMP if possible: False Boost threads enabled: True Enable CUDA: False Enable KOKKOS: False Use conda: False Use opt_resources if available: False Use environment flags: True Enable C++11: False CXXFLAGS = -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 CFLAGS = -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection CPPFLAGS = -Wdate-time -D_FORTIFY_SOURCE=2 LDFLAGS = -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 command_version_suffix: None Relocatable paths anchored at: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_ Top-down list of all modules involved: wxtbx "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/wxtbx" serialtbx "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/serialtbx" rstbx "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx" spotfinder "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder" mmtbx "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx" gltbx "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/gltbx" dxtbx "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx" iotbx "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx" smtbx "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx" ucif "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/ucif" crys3d "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/crys3d" cctbx "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx" chiltbx "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/chiltbx" ccp4io+adaptbx "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/ccp4io" "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/ccp4io_adaptbx" cbflib_adaptbx "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx" annlib+adaptbx "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib" "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx" scitbx "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx" fable "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable" cma_es "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cma_es" omptbx "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/omptbx" boost+adaptbx "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost" "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx" tbxx "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/tbxx" libtbx "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/libtbx" Creating files in build directory: "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_" dispatcher_include_template.sh dispatcher_head.sh setpaths.sh setpaths.csh setpaths_all.sh setpaths_all.csh setpaths_debug.sh unsetpaths.sh setpaths_debug.csh unsetpaths.csh SConstruct Makefile run_tests.csh Processing: "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/libtbx/command_line" Processing: "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/command_line" Processing: "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/command_line" Processing: "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/command_line" Processing: "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx/command_line" Processing: "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/command_line" Processing: "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/crys3d/command_line" Processing: "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/command_line" Processing: "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/command_line" Processing: "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/gltbx/command_line" Processing: "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/command_line" Processing: "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/command_line" Processing: "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/command_line" Processing: "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/wxtbx/command_line" Processing: "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/libtbx/libtbx_refresh.py" Processing: "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/libtbx_refresh.py" Processing: "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/libtbx_refresh.py" Generating C++ header files in: "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include/scitbx/array_family" Generating C++ files in: "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include/scitbx/array_family/boost_python" Using fable to convert scitbx/lbfgs.f Updating entry points for scitbx 1 entries for entry point pytest_randomly.random_seeder Obtaining file:///build/reproducible-path/cctbx-2026.4%2Bds2%2B~3.28.0%2Bds1/dxtbx Checking if build backend supports build_editable: started Checking if build backend supports build_editable: finished with status 'done' Preparing editable metadata (pyproject.toml): started Preparing editable metadata (pyproject.toml): finished with status 'done' Building wheels for collected packages: dxtbx Building editable for dxtbx (pyproject.toml): started Building editable for dxtbx (pyproject.toml): finished with status 'done' Created wheel for dxtbx: filename=dxtbx-3.28.0-py3-none-any.whl size=6893 sha256=abe7ddbeee1170daa14156d83c6a258be214f4605d78bb4536ded8e79a7f59cf Stored in directory: /tmp/pip-ephem-wheel-cache-5n6c94gi/wheels/b7/15/e8/75deb7a384be422f368e9107298b6c97c0ca80bb1e8b595baf Successfully built dxtbx Installing collected packages: dxtbx Successfully installed dxtbx-3.28.0 Processing: "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/libtbx_refresh.py" Generating C++ files in: "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/cctbx/eltbx" Generating C++ files in: "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include/cctbx/boost_python" Processing: "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/crys3d/libtbx_refresh.py" Processing: "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/libtbx_refresh.py" Generating C++ files in: "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include/smtbx/boost_python" Processing: "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/libtbx_refresh.py" Using fable to convert iotbx/pdb/hybrid_36_f.f Writing: iotbx/pdb/hybrid_36_fem.cpp Processing: "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/libtbx_refresh.py" Processing: "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/gltbx/libtbx_refresh.py" Generating C++ files in: "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/gltbx" fonts: 8x13 9x15 10x20 Processing: "/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/libtbx_refresh.py" Done. make[1]: Leaving directory '/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1' rm -f debian/libcctbx-dev.debhelper.log debian/libcctbx0.debhelper.log debian/python3-cctbx.debhelper.log debian/rules override_dh_auto_build make[1]: Entering directory '/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1' # Python modules dh_auto_build -- --name cctbx pybuild --build -i python{version} -p "3.14 3.13" --name cctbx --parallel=6 I: pybuild plugin_pyproject:142: Building wheel for python3.14 with "build" module I: pybuild base:385: python3.14 -m build --skip-dependency-check --no-isolation --wheel --outdir /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx * Building wheel... running bdist_wheel running build running build_py creating build/lib/annlib_adaptbx copying annlib_adaptbx/__init__.py -> build/lib/annlib_adaptbx copying annlib_adaptbx/run_tests.py -> build/lib/annlib_adaptbx creating build/lib/fftw3tbx copying fftw3tbx/__init__.py -> build/lib/fftw3tbx copying fftw3tbx/libtbx_refresh.py -> build/lib/fftw3tbx copying fftw3tbx/tst_ext.py -> build/lib/fftw3tbx creating build/lib/smtbx copying smtbx/development.py -> build/lib/smtbx copying smtbx/__init__.py -> build/lib/smtbx copying smtbx/run_tests.py -> build/lib/smtbx copying smtbx/libtbx_refresh.py -> build/lib/smtbx copying smtbx/utils.py -> build/lib/smtbx creating build/lib/wxtbx copying wxtbx/checklistctrl.py -> build/lib/wxtbx copying wxtbx/anomalous_scattering.py -> build/lib/wxtbx copying wxtbx/bitmaps.py -> build/lib/wxtbx copying wxtbx/metallicbutton.py -> build/lib/wxtbx copying wxtbx/layout.py -> build/lib/wxtbx copying wxtbx/tables.py -> build/lib/wxtbx copying wxtbx/adp_statistics.py -> build/lib/wxtbx copying wxtbx/xtriage.py -> build/lib/wxtbx copying wxtbx/windows.py -> build/lib/wxtbx copying wxtbx/browser.py -> build/lib/wxtbx copying wxtbx/monitor.py -> build/lib/wxtbx copying wxtbx/custom_restraints.py -> build/lib/wxtbx copying wxtbx/sequence_view.py -> build/lib/wxtbx copying wxtbx/listeditor.py -> build/lib/wxtbx copying wxtbx/ensemble_validation.py -> build/lib/wxtbx copying wxtbx/segmentedctrl.py -> build/lib/wxtbx copying wxtbx/process_control.py -> build/lib/wxtbx copying wxtbx/wx4_compatibility.py -> build/lib/wxtbx copying wxtbx/path_dialogs.py -> build/lib/wxtbx copying wxtbx/symmetry_dialog.py -> build/lib/wxtbx copying wxtbx/b_plot.py -> build/lib/wxtbx copying wxtbx/qstat_view.py -> build/lib/wxtbx copying wxtbx/heavy_atoms.py -> build/lib/wxtbx copying wxtbx/__init__.py -> build/lib/wxtbx copying wxtbx/mtz_dump.py -> build/lib/wxtbx copying wxtbx/errors.py -> build/lib/wxtbx copying wxtbx/pdb_editor.py -> build/lib/wxtbx copying wxtbx/misc_dialogs.py -> build/lib/wxtbx copying wxtbx/polygon.py -> build/lib/wxtbx copying wxtbx/app.py -> build/lib/wxtbx copying wxtbx/polygon_db_viewer.py -> build/lib/wxtbx copying wxtbx/icons.py -> build/lib/wxtbx copying wxtbx/info_panels.py -> build/lib/wxtbx copying wxtbx/utils.py -> build/lib/wxtbx creating build/lib/cma_es copying cma_es/cma_es_interface.py -> build/lib/cma_es copying cma_es/__init__.py -> build/lib/cma_es copying cma_es/run_tests.py -> build/lib/cma_es copying cma_es/tst_cma_es.py -> build/lib/cma_es creating build/lib/boost_adaptbx copying boost_adaptbx/hybrid_times.py -> build/lib/boost_adaptbx copying boost_adaptbx/__init__.py -> build/lib/boost_adaptbx copying boost_adaptbx/run_tests.py -> build/lib/boost_adaptbx copying boost_adaptbx/libtbx_refresh.py -> build/lib/boost_adaptbx creating build/lib/gltbx copying gltbx/wx_scene.py -> build/lib/gltbx copying gltbx/viewer_utils.py -> build/lib/gltbx copying gltbx/wx_motion_on_tab.py -> build/lib/gltbx copying gltbx/gl.py -> build/lib/gltbx copying gltbx/images.py -> build/lib/gltbx copying gltbx/generate_functions_bpl.py -> build/lib/gltbx copying gltbx/wx_viewers_images.py -> build/lib/gltbx copying gltbx/wx_viewer_example.py -> build/lib/gltbx copying gltbx/generate_defines_bpl.py -> build/lib/gltbx copying gltbx/glu.py -> build/lib/gltbx copying gltbx/wx_cube.py -> build/lib/gltbx copying gltbx/fonts.py -> build/lib/gltbx copying gltbx/util.py -> build/lib/gltbx copying gltbx/extract_opengl_specs.py -> build/lib/gltbx copying gltbx/tst_fonts.py -> build/lib/gltbx copying gltbx/wx_viewer.py -> build/lib/gltbx copying gltbx/__init__.py -> build/lib/gltbx copying gltbx/generate_fonts_ucs_cpp.py -> build/lib/gltbx copying gltbx/quadrics.py -> build/lib/gltbx copying gltbx/run_tests.py -> build/lib/gltbx copying gltbx/gl_managed.py -> build/lib/gltbx copying gltbx/wx_viewer_leapmotion.py -> build/lib/gltbx copying gltbx/tst.py -> build/lib/gltbx copying gltbx/tst_ellipsoids.py -> build/lib/gltbx copying gltbx/tst_viewer_utils.py -> build/lib/gltbx copying gltbx/libtbx_refresh.py -> build/lib/gltbx copying gltbx/wx_ellipsoids_test.py -> build/lib/gltbx creating build/lib/mmtbx copying mmtbx/map_tools.py -> build/lib/mmtbx copying mmtbx/pdbtools.py -> build/lib/mmtbx copying mmtbx/resolve_resources.py -> build/lib/mmtbx copying mmtbx/xmanip.py -> build/lib/mmtbx copying mmtbx/msa.py -> build/lib/mmtbx copying mmtbx/pdb_symmetry.py -> build/lib/mmtbx copying mmtbx/lattice.py -> build/lib/mmtbx copying mmtbx/model_vs_data.py -> build/lib/mmtbx copying mmtbx/proq2.py -> build/lib/mmtbx copying mmtbx/pdb_distances.py -> build/lib/mmtbx copying mmtbx/arrays.py -> build/lib/mmtbx copying mmtbx/process_predicted_model.py -> build/lib/mmtbx copying mmtbx/clashes.py -> build/lib/mmtbx copying mmtbx/grow_density.py -> build/lib/mmtbx copying mmtbx/xmanip_tasks.py -> build/lib/mmtbx copying mmtbx/find_peaks.py -> build/lib/mmtbx copying mmtbx/__init__.py -> build/lib/mmtbx copying mmtbx/run_tests.py -> build/lib/mmtbx copying mmtbx/real_space_correlation.py -> build/lib/mmtbx copying mmtbx/superpose.py -> build/lib/mmtbx copying mmtbx/libtbx_refresh.py -> build/lib/mmtbx copying mmtbx/f_model_info.py -> build/lib/mmtbx copying mmtbx/invariant_domain.py -> build/lib/mmtbx copying mmtbx/restraints.py -> build/lib/mmtbx copying mmtbx/domains_from_pae.py -> build/lib/mmtbx creating build/lib/fable copying fable/simple_compilation.py -> build/lib/fable copying fable/intrinsics.py -> build/lib/fable copying fable/tst_cout_compile.py -> build/lib/fable copying fable/cout.py -> build/lib/fable copying fable/equivalence.py -> build/lib/fable copying fable/read.py -> build/lib/fable copying fable/__init__.py -> build/lib/fable copying fable/run_tests.py -> build/lib/fable copying fable/tokenization.py -> build/lib/fable copying fable/tst_equivalence.py -> build/lib/fable copying fable/tst_read.py -> build/lib/fable copying fable/tst_ext.py -> build/lib/fable copying fable/utils.py -> build/lib/fable copying fable/tst_cout.py -> build/lib/fable creating build/lib/rstbx copying rstbx/__init__.py -> build/lib/rstbx copying rstbx/run_tests.py -> build/lib/rstbx copying rstbx/utils.py -> build/lib/rstbx creating build/lib/boost copying boost/tuple.py -> build/lib/boost copying boost/optional.py -> build/lib/boost copying boost/std_pair.py -> build/lib/boost copying boost/python.py -> build/lib/boost copying boost/__init__.py -> build/lib/boost copying boost/rational.py -> build/lib/boost creating build/lib/spotfinder copying spotfinder/__init__.py -> build/lib/spotfinder copying spotfinder/run_tests.py -> build/lib/spotfinder copying spotfinder/exception.py -> build/lib/spotfinder creating build/lib/iotbx copying iotbx/poscar.py -> build/lib/iotbx copying iotbx/cif_mtz_data_labels.py -> build/lib/iotbx copying iotbx/map_tools.py -> build/lib/iotbx copying iotbx/data_plots.py -> build/lib/iotbx copying iotbx/phil.py -> build/lib/iotbx copying iotbx/pymol.py -> build/lib/iotbx copying iotbx/logfiles.py -> build/lib/iotbx copying iotbx/reflection_file_converter.py -> build/lib/iotbx copying iotbx/table_one.py -> build/lib/iotbx copying iotbx/simple_parser.py -> build/lib/iotbx copying iotbx/map_model_manager.py -> build/lib/iotbx copying iotbx/csv_utils.py -> build/lib/iotbx copying iotbx/reflection_file_utils.py -> build/lib/iotbx copying iotbx/phases.py -> build/lib/iotbx copying iotbx/builders.py -> build/lib/iotbx copying iotbx/builders_depending_on_smtbx.py -> build/lib/iotbx copying iotbx/reflection_file_reader.py -> build/lib/iotbx copying iotbx/extract_xtal_data.py -> build/lib/iotbx copying iotbx/wildcard.py -> build/lib/iotbx copying iotbx/option_parser.py -> build/lib/iotbx copying iotbx/symmetry.py -> build/lib/iotbx copying iotbx/__init__.py -> build/lib/iotbx copying iotbx/ranges.py -> build/lib/iotbx copying iotbx/reflection_file_editor.py -> build/lib/iotbx copying iotbx/run_tests.py -> build/lib/iotbx copying iotbx/map_manager.py -> build/lib/iotbx copying iotbx/libtbx_refresh.py -> build/lib/iotbx copying iotbx/file_reader.py -> build/lib/iotbx copying iotbx/cli_parser.py -> build/lib/iotbx copying iotbx/merging_statistics.py -> build/lib/iotbx copying iotbx/format.py -> build/lib/iotbx copying iotbx/crystal_symmetry_from_any.py -> build/lib/iotbx copying iotbx/mtrix_biomt.py -> build/lib/iotbx creating build/lib/qttbx copying qttbx/phil.py -> build/lib/qttbx copying qttbx/__init__.py -> build/lib/qttbx creating build/lib/simtbx copying simtbx/__init__.py -> build/lib/simtbx copying simtbx/run_tests.py -> build/lib/simtbx creating build/lib/omptbx copying omptbx/__init__.py -> build/lib/omptbx copying omptbx/tst.py -> build/lib/omptbx creating build/lib/xcif copying xcif/__init__.py -> build/lib/xcif copying xcif/run_tests.py -> build/lib/xcif creating build/lib/fast_linalg copying fast_linalg/__init__.py -> build/lib/fast_linalg creating build/lib/serialtbx copying serialtbx/__init__.py -> build/lib/serialtbx creating build/lib/scitbx copying scitbx/simplex.py -> build/lib/scitbx copying scitbx/minimizers.py -> build/lib/scitbx copying scitbx/fftpack.py -> build/lib/scitbx copying scitbx/differential_evolution.py -> build/lib/scitbx copying scitbx/direct_search_simulated_annealing.py -> build/lib/scitbx copying scitbx/regular_grid_on_unit_sphere.py -> build/lib/scitbx copying scitbx/cubicle_neighbors.py -> build/lib/scitbx copying scitbx/smoothing.py -> build/lib/scitbx copying scitbx/lbfgsb.py -> build/lib/scitbx copying scitbx/golden_section_search.py -> build/lib/scitbx copying scitbx/genetic_algorithm_with_mp.py -> build/lib/scitbx copying scitbx/minpack.py -> build/lib/scitbx copying scitbx/cross_entropy.py -> build/lib/scitbx copying scitbx/__init__.py -> build/lib/scitbx copying scitbx/run_tests.py -> build/lib/scitbx copying scitbx/libtbx_refresh.py -> build/lib/scitbx copying scitbx/r3_utils.py -> build/lib/scitbx copying scitbx/restraints.py -> build/lib/scitbx creating build/lib/cctbx copying cctbx/run_examples.py -> build/lib/cctbx copying cctbx/anharmonic.py -> build/lib/cctbx copying cctbx/french_wilson.py -> build/lib/cctbx copying cctbx/math_module.py -> build/lib/cctbx copying cctbx/multipolar.py -> build/lib/cctbx copying cctbx/euclidean_model_matching.py -> build/lib/cctbx copying cctbx/crystal_orientation.py -> build/lib/cctbx copying cctbx/dmtbx.py -> build/lib/cctbx copying cctbx/__init__.py -> build/lib/cctbx copying cctbx/run_tests.py -> build/lib/cctbx copying cctbx/libtbx_refresh.py -> build/lib/cctbx copying cctbx/adptbx.py -> build/lib/cctbx copying cctbx/translation_search.py -> build/lib/cctbx copying cctbx/r_free_utils.py -> build/lib/cctbx copying cctbx/statistics.py -> build/lib/cctbx copying cctbx/symmetry_search.py -> build/lib/cctbx creating build/lib/cootbx copying cootbx/hydrogens_button.py -> build/lib/cootbx copying cootbx/watch_file.py -> build/lib/cootbx copying cootbx/simple_zoom_list.py -> build/lib/cootbx copying cootbx/interactive_edit.py -> build/lib/cootbx copying cootbx/xmlrpc_server.py -> build/lib/cootbx copying cootbx/validation_lists.py -> build/lib/cootbx copying cootbx/__init__.py -> build/lib/cootbx copying cootbx/ligand_checklist.py -> build/lib/cootbx copying cootbx/view_refinement.py -> build/lib/cootbx creating build/lib/ccp4io_adaptbx copying ccp4io_adaptbx/copy_files.py -> build/lib/ccp4io_adaptbx copying ccp4io_adaptbx/__init__.py -> build/lib/ccp4io_adaptbx copying ccp4io_adaptbx/tst.py -> build/lib/ccp4io_adaptbx creating build/lib/libtbx copying libtbx/configure.py -> build/lib/libtbx copying libtbx/cluster.py -> build/lib/libtbx copying libtbx/find_reference_cycles.py -> build/lib/libtbx copying libtbx/dlite.py -> build/lib/libtbx copying libtbx/tst_version.py -> build/lib/libtbx copying libtbx/tst_containers.py -> build/lib/libtbx copying libtbx/citations.py -> build/lib/libtbx copying libtbx/resource_monitor.py -> build/lib/libtbx copying libtbx/tst_binary_search.py -> build/lib/libtbx copying libtbx/smart_open.py -> build/lib/libtbx copying libtbx/thread_utils.py -> build/lib/libtbx copying libtbx/easy_run.py -> build/lib/libtbx copying libtbx/word_index_generator.py -> build/lib/libtbx copying libtbx/xmlrpc_utils.py -> build/lib/libtbx copying libtbx/clusterTests.py -> build/lib/libtbx copying libtbx/code_analysis.py -> build/lib/libtbx copying libtbx/path.py -> build/lib/libtbx copying libtbx/console_utils.py -> build/lib/libtbx copying libtbx/cli.py -> build/lib/libtbx copying libtbx/file_clutter.py -> build/lib/libtbx copying libtbx/math_utils.py -> build/lib/libtbx copying libtbx/forward_compatibility.py -> build/lib/libtbx copying libtbx/tst_run_tests_parallel_unique_dirs.py -> build/lib/libtbx copying libtbx/assert_utils.py -> build/lib/libtbx copying libtbx/progress.py -> build/lib/libtbx copying libtbx/tst_str_utils.py -> build/lib/libtbx copying libtbx/tst_mahalanobis.py -> build/lib/libtbx copying libtbx/complex_math.py -> build/lib/libtbx copying libtbx/tst_xmlrpc_utils.py -> build/lib/libtbx copying libtbx/easy_profile.py -> build/lib/libtbx copying libtbx/tst_utils.py -> build/lib/libtbx copying libtbx/tst_thread_utils.py -> build/lib/libtbx copying libtbx/tst_citations.py -> build/lib/libtbx copying libtbx/table_utils.py -> build/lib/libtbx copying libtbx/clear_paths.py -> build/lib/libtbx copying libtbx/simplexml.py -> build/lib/libtbx copying libtbx/tst_program_template.py -> build/lib/libtbx copying libtbx/tst_scheduling.py -> build/lib/libtbx copying libtbx/objgraph.py -> build/lib/libtbx copying libtbx/object_oriented_patterns.py -> build/lib/libtbx copying libtbx/cpp_function_name.py -> build/lib/libtbx copying libtbx/tst_fully_buffered_timeout.py -> build/lib/libtbx copying libtbx/log.py -> build/lib/libtbx copying libtbx/pkg_utils.py -> build/lib/libtbx copying libtbx/tst_representation.py -> build/lib/libtbx copying libtbx/crossmingw.py -> build/lib/libtbx copying libtbx/tst_easy_pickle.py -> build/lib/libtbx copying libtbx/tst_easy_mp_state.py -> build/lib/libtbx copying libtbx/tst_python_code_parsing.py -> build/lib/libtbx copying libtbx/str_utils.py -> build/lib/libtbx copying libtbx/binary_search.py -> build/lib/libtbx copying libtbx/tst_topological_sort.py -> build/lib/libtbx copying libtbx/option_parser.py -> build/lib/libtbx copying libtbx/try_hello_world_c.py -> build/lib/libtbx copying libtbx/pyframe.py -> build/lib/libtbx copying libtbx/wingide.py -> build/lib/libtbx copying libtbx/tst_find_unused_imports.py -> build/lib/libtbx copying libtbx/__init__.py -> build/lib/libtbx copying libtbx/tst_add_docstrings_with_ai.py -> build/lib/libtbx copying libtbx/env_config.py -> build/lib/libtbx copying libtbx/tst_easy_mp_multicore.py -> build/lib/libtbx copying libtbx/tst_dlite.py -> build/lib/libtbx copying libtbx/start_print_trace.py -> build/lib/libtbx copying libtbx/run_tests.py -> build/lib/libtbx copying libtbx/easy_pickle.py -> build/lib/libtbx copying libtbx/introspection.py -> build/lib/libtbx copying libtbx/tst_run_tests_parallel_retry.py -> build/lib/libtbx copying libtbx/tst_word_index_generator.py -> build/lib/libtbx copying libtbx/metric_prefixes.py -> build/lib/libtbx copying libtbx/callbacks.py -> build/lib/libtbx copying libtbx/tst_object_oriented_patterns.py -> build/lib/libtbx copying libtbx/tst_easy_mp.py -> build/lib/libtbx copying libtbx/mpi4py.py -> build/lib/libtbx copying libtbx/libtbx_refresh.py -> build/lib/libtbx copying libtbx/topological_sort.py -> build/lib/libtbx copying libtbx/program_template.py -> build/lib/libtbx copying libtbx/tst_math_utils.py -> build/lib/libtbx copying libtbx/python_code_parsing.py -> build/lib/libtbx copying libtbx/containers.py -> build/lib/libtbx copying libtbx/tst_runtime_utils.py -> build/lib/libtbx copying libtbx/load_env.py -> build/lib/libtbx copying libtbx/easy_mp.py -> build/lib/libtbx copying libtbx/runtime_utils.py -> build/lib/libtbx copying libtbx/version.py -> build/lib/libtbx copying libtbx/xmlrpc_server_example.py -> build/lib/libtbx copying libtbx/subprocess_with_fixes.py -> build/lib/libtbx copying libtbx/utils.py -> build/lib/libtbx copying libtbx/pyplot.py -> build/lib/libtbx copying libtbx/tst_path.py -> build/lib/libtbx creating build/lib/cctbx_website copying cctbx_website/__init__.py -> build/lib/cctbx_website copying cctbx_website/run_tests.py -> build/lib/cctbx_website copying cctbx_website/libtbx_refresh.py -> build/lib/cctbx_website creating build/lib/cbflib_adaptbx copying cbflib_adaptbx/copy_files.py -> build/lib/cbflib_adaptbx copying cbflib_adaptbx/exercise_compression.py -> build/lib/cbflib_adaptbx copying cbflib_adaptbx/__init__.py -> build/lib/cbflib_adaptbx copying cbflib_adaptbx/run_tests.py -> build/lib/cbflib_adaptbx creating build/lib/annlib_adaptbx/annlib_adaptbx copying annlib_adaptbx/annlib_adaptbx/self_match.py -> build/lib/annlib_adaptbx/annlib_adaptbx copying annlib_adaptbx/annlib_adaptbx/sample.py -> build/lib/annlib_adaptbx/annlib_adaptbx copying annlib_adaptbx/annlib_adaptbx/__init__.py -> build/lib/annlib_adaptbx/annlib_adaptbx creating build/lib/annlib_adaptbx/source_generators copying annlib_adaptbx/source_generators/__init__.py -> build/lib/annlib_adaptbx/source_generators copying annlib_adaptbx/source_generators/generate_all.py -> build/lib/annlib_adaptbx/source_generators creating build/lib/smtbx/command_line copying smtbx/command_line/absolute_structure.py -> build/lib/smtbx/command_line copying smtbx/command_line/refine.py -> build/lib/smtbx/command_line copying smtbx/command_line/anom_refine.py -> build/lib/smtbx/command_line copying smtbx/command_line/__init__.py -> build/lib/smtbx/command_line copying smtbx/command_line/masks.py -> build/lib/smtbx/command_line copying smtbx/command_line/benchmark_refinement.py -> build/lib/smtbx/command_line creating build/lib/smtbx/stl copying smtbx/stl/map.py -> build/lib/smtbx/stl copying smtbx/stl/__init__.py -> build/lib/smtbx/stl creating build/lib/smtbx/masks copying smtbx/masks/__init__.py -> build/lib/smtbx/masks creating build/lib/smtbx/array_family copying smtbx/array_family/__init__.py -> build/lib/smtbx/array_family creating build/lib/smtbx/source_generators copying smtbx/source_generators/flex_fwd_h.py -> build/lib/smtbx/source_generators copying smtbx/source_generators/__init__.py -> build/lib/smtbx/source_generators creating build/lib/smtbx/regression copying smtbx/regression/__init__.py -> build/lib/smtbx/regression copying smtbx/regression/tst_commandline_refine.py -> build/lib/smtbx/regression copying smtbx/regression/tst_commandline_anomrefine.py -> build/lib/smtbx/regression creating build/lib/smtbx/ab_initio copying smtbx/ab_initio/charge_flipping.py -> build/lib/smtbx/ab_initio copying smtbx/ab_initio/__init__.py -> build/lib/smtbx/ab_initio creating build/lib/smtbx/refinement copying smtbx/refinement/weighting_schemes.py -> build/lib/smtbx/refinement copying smtbx/refinement/least_squares.py -> build/lib/smtbx/refinement copying smtbx/refinement/__init__.py -> build/lib/smtbx/refinement creating build/lib/smtbx/absolute_structure copying smtbx/absolute_structure/__init__.py -> build/lib/smtbx/absolute_structure creating build/lib/smtbx/structure_factors copying smtbx/structure_factors/__init__.py -> build/lib/smtbx/structure_factors creating build/lib/smtbx/regression/test_data copying smtbx/regression/test_data/__init__.py -> build/lib/smtbx/regression/test_data creating build/lib/smtbx/ab_initio/tests copying smtbx/ab_initio/tests/__init__.py -> build/lib/smtbx/ab_initio/tests copying smtbx/ab_initio/tests/tst_charge_flipping.py -> build/lib/smtbx/ab_initio/tests copying smtbx/ab_initio/tests/tst_ab_initio_ext.py -> build/lib/smtbx/ab_initio/tests creating build/lib/smtbx/refinement/restraints copying smtbx/refinement/restraints/origin_fixing_restraints.py -> build/lib/smtbx/refinement/restraints copying smtbx/refinement/restraints/adp_restraints.py -> build/lib/smtbx/refinement/restraints copying smtbx/refinement/restraints/__init__.py -> build/lib/smtbx/refinement/restraints creating build/lib/smtbx/refinement/constraints copying smtbx/refinement/constraints/rigid.py -> build/lib/smtbx/refinement/constraints copying smtbx/refinement/constraints/occupancy.py -> build/lib/smtbx/refinement/constraints copying smtbx/refinement/constraints/fpfdp.py -> build/lib/smtbx/refinement/constraints copying smtbx/refinement/constraints/adp.py -> build/lib/smtbx/refinement/constraints copying smtbx/refinement/constraints/site.py -> build/lib/smtbx/refinement/constraints copying smtbx/refinement/constraints/all.py -> build/lib/smtbx/refinement/constraints copying smtbx/refinement/constraints/__init__.py -> build/lib/smtbx/refinement/constraints creating build/lib/smtbx/refinement/constraints/geometrical copying smtbx/refinement/constraints/geometrical/hydrogens.py -> build/lib/smtbx/refinement/constraints/geometrical copying smtbx/refinement/constraints/geometrical/all.py -> build/lib/smtbx/refinement/constraints/geometrical copying smtbx/refinement/constraints/geometrical/__init__.py -> build/lib/smtbx/refinement/constraints/geometrical creating build/lib/smtbx/refinement/constraints/tests copying smtbx/refinement/constraints/tests/tst_occupancies.py -> build/lib/smtbx/refinement/constraints/tests copying smtbx/refinement/constraints/tests/tst_direction.py -> build/lib/smtbx/refinement/constraints/tests copying smtbx/refinement/constraints/tests/tst_lbfgs.py -> build/lib/smtbx/refinement/constraints/tests copying smtbx/refinement/constraints/tests/tst_same_group.py -> build/lib/smtbx/refinement/constraints/tests copying smtbx/refinement/constraints/tests/tst_constrained_structure.py -> build/lib/smtbx/refinement/constraints/tests copying smtbx/refinement/constraints/tests/tst_reparametrisation.py -> build/lib/smtbx/refinement/constraints/tests copying smtbx/refinement/constraints/tests/__init__.py -> build/lib/smtbx/refinement/constraints/tests copying smtbx/refinement/constraints/tests/tst_rigid.py -> build/lib/smtbx/refinement/constraints/tests copying smtbx/refinement/constraints/tests/tst_disorder.py -> build/lib/smtbx/refinement/constraints/tests creating build/lib/smtbx/structure_factors/direct copying smtbx/structure_factors/direct/__init__.py -> build/lib/smtbx/structure_factors/direct creating build/lib/wxtbx/phil_controls copying wxtbx/phil_controls/choice_multi.py -> build/lib/wxtbx/phil_controls copying wxtbx/phil_controls/path.py -> build/lib/wxtbx/phil_controls copying wxtbx/phil_controls/tribool.py -> build/lib/wxtbx/phil_controls copying wxtbx/phil_controls/floats.py -> build/lib/wxtbx/phil_controls copying wxtbx/phil_controls/tree.py -> build/lib/wxtbx/phil_controls copying wxtbx/phil_controls/unit_cell.py -> build/lib/wxtbx/phil_controls copying wxtbx/phil_controls/space_group.py -> build/lib/wxtbx/phil_controls copying wxtbx/phil_controls/array_label.py -> build/lib/wxtbx/phil_controls copying wxtbx/phil_controls/numbers.py -> build/lib/wxtbx/phil_controls copying wxtbx/phil_controls/text_base.py -> build/lib/wxtbx/phil_controls copying wxtbx/phil_controls/strings.py -> build/lib/wxtbx/phil_controls copying wxtbx/phil_controls/misc_ctrls.py -> build/lib/wxtbx/phil_controls copying wxtbx/phil_controls/strctrl.py -> build/lib/wxtbx/phil_controls copying wxtbx/phil_controls/choice.py -> build/lib/wxtbx/phil_controls copying wxtbx/phil_controls/simple_dialogs.py -> build/lib/wxtbx/phil_controls copying wxtbx/phil_controls/__init__.py -> build/lib/wxtbx/phil_controls copying wxtbx/phil_controls/symop.py -> build/lib/wxtbx/phil_controls copying wxtbx/phil_controls/ints.py -> build/lib/wxtbx/phil_controls copying wxtbx/phil_controls/boolctrl.py -> build/lib/wxtbx/phil_controls copying wxtbx/phil_controls/intctrl.py -> build/lib/wxtbx/phil_controls copying wxtbx/phil_controls/floatctrl.py -> build/lib/wxtbx/phil_controls creating build/lib/wxtbx/command_line copying wxtbx/command_line/plan_sad_experiment.py -> build/lib/wxtbx/command_line copying wxtbx/command_line/xtriage.py -> build/lib/wxtbx/command_line copying wxtbx/command_line/plot_anomalous_scattering.py -> build/lib/wxtbx/command_line copying wxtbx/command_line/anomalous_differences_histogram.py -> build/lib/wxtbx/command_line copying wxtbx/command_line/show_file_info.py -> build/lib/wxtbx/command_line copying wxtbx/command_line/pdb_statistics.py -> build/lib/wxtbx/command_line copying wxtbx/command_line/loggraph.py -> build/lib/wxtbx/command_line copying wxtbx/command_line/b_plot.py -> build/lib/wxtbx/command_line copying wxtbx/command_line/__init__.py -> build/lib/wxtbx/command_line copying wxtbx/command_line/pdb_editor.py -> build/lib/wxtbx/command_line copying wxtbx/command_line/wxpython.py -> build/lib/wxtbx/command_line copying wxtbx/command_line/inspect_r_free_flags.py -> build/lib/wxtbx/command_line creating build/lib/wxtbx/plots copying wxtbx/plots/__init__.py -> build/lib/wxtbx/plots copying wxtbx/plots/molprobity.py -> build/lib/wxtbx/plots copying wxtbx/plots/emringer.py -> build/lib/wxtbx/plots creating build/lib/wxtbx/reports copying wxtbx/reports/blast.py -> build/lib/wxtbx/reports copying wxtbx/reports/pdb_symmetry.py -> build/lib/wxtbx/reports copying wxtbx/reports/__init__.py -> build/lib/wxtbx/reports creating build/lib/boost_adaptbx/command_line copying boost_adaptbx/command_line/show_platform_info.py -> build/lib/boost_adaptbx/command_line copying boost_adaptbx/command_line/double_overflow.py -> build/lib/boost_adaptbx/command_line copying boost_adaptbx/command_line/gcd.py -> build/lib/boost_adaptbx/command_line copying boost_adaptbx/command_line/lcm.py -> build/lib/boost_adaptbx/command_line copying boost_adaptbx/command_line/nested_cpp_loops_with_check_signals.py -> build/lib/boost_adaptbx/command_line copying boost_adaptbx/command_line/divide_by_zero.py -> build/lib/boost_adaptbx/command_line copying boost_adaptbx/command_line/int_overflow.py -> build/lib/boost_adaptbx/command_line copying boost_adaptbx/command_line/inexact.py -> build/lib/boost_adaptbx/command_line copying boost_adaptbx/command_line/segmentation_fault.py -> build/lib/boost_adaptbx/command_line copying boost_adaptbx/command_line/__init__.py -> build/lib/boost_adaptbx/command_line copying boost_adaptbx/command_line/show_environ_usage.py -> build/lib/boost_adaptbx/command_line creating build/lib/boost_adaptbx/graph copying boost_adaptbx/graph/min_cut_max_flow.py -> build/lib/boost_adaptbx/graph copying boost_adaptbx/graph/graph_structure_comparison.py -> build/lib/boost_adaptbx/graph copying boost_adaptbx/graph/connected_component_algorithm.py -> build/lib/boost_adaptbx/graph copying boost_adaptbx/graph/metric.py -> build/lib/boost_adaptbx/graph copying boost_adaptbx/graph/utility.py -> build/lib/boost_adaptbx/graph copying boost_adaptbx/graph/breadth_first_search.py -> build/lib/boost_adaptbx/graph copying boost_adaptbx/graph/maximum_clique.py -> build/lib/boost_adaptbx/graph copying boost_adaptbx/graph/__init__.py -> build/lib/boost_adaptbx/graph copying boost_adaptbx/graph/clustering_algorithm.py -> build/lib/boost_adaptbx/graph copying boost_adaptbx/graph/minimum_cut_enumerate.py -> build/lib/boost_adaptbx/graph creating build/lib/boost_adaptbx/boost copying boost_adaptbx/boost/tuple.py -> build/lib/boost_adaptbx/boost copying boost_adaptbx/boost/optional.py -> build/lib/boost_adaptbx/boost copying boost_adaptbx/boost/std_pair.py -> build/lib/boost_adaptbx/boost copying boost_adaptbx/boost/python.py -> build/lib/boost_adaptbx/boost copying boost_adaptbx/boost/__init__.py -> build/lib/boost_adaptbx/boost copying boost_adaptbx/boost/rational.py -> build/lib/boost_adaptbx/boost creating build/lib/gltbx/command_line copying gltbx/command_line/try_imports.py -> build/lib/gltbx/command_line copying gltbx/command_line/__init__.py -> build/lib/gltbx/command_line creating build/lib/mmtbx/command_line copying mmtbx/command_line/rna_validate_bonds.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/model_vs_map.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/fmodel.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/remove_outliers.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/rotalyze.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/model_model_distances.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/pdbtools.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/distance_difference.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/density_modification.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/models_as_chains.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/super.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/barbed_wire_analysis.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/arginine_geometry.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/rama_z.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/suitename.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/polder.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/model_vs_sequence.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/reciprocal_space_arrays.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/cif_as_mtz.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/reduce_cryoem_resolution.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/plan_sad_experiment.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/rebuild_rotarama_cache.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/comparama.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/ringer.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/mask.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/hbond.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/xmanip.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/sisa.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/fetch_pdb.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/chiral_validation.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/verify_mon_lib_data.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/mon_lib_cif_triage.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/cbetadev.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/map_to_model_histogram.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/xtrapol8.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/search_pdb_symmetry.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/taam_minus_iam.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/cablam.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/xtriage.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/model_idealization.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/mtz2map.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/undowser2.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/prune_model.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/model_vs_data.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/mp_validate_bonds.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/table_one.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/select_best_starting_model.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/tls_analysis.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/atom_valence_simple.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/dynamics.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/maximum_entropy_map.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/validate_H_cl_app.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/helix_sheet_recs_as_pdb_files.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/ligand_restraints_validation.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/clashscore.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/suitename_old.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/fobs_minus_fobs_map.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/find_peaks_holes.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/secondary_structure_restraints.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/ramalyze.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/cc_star.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/sort_hetatms.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/geometry_minimization.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/water_b_factors.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/emringer_score.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/debug_riding.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/holton_geometry_validation.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/apply_ncs_to_ligand.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/rebuild_cablam_cache.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/next_gen_atom_typing.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/maps.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/ss_idealization.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/where_is_that_cif_file.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/process_predicted_model.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/angle.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/probe2.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/ribbons.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/perigee.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/altloc_remediate.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/f000.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/electrons.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/reduce2.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/development_aev.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/rigid_bond_test.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/massage_data.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/fab_elbow_angle.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/undowser.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/rna_validate_suites.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/grow_density.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/hydrogenate.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/probescore_ligand.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/real_space_diff_map.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/quantum_interface.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/map_comparison.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/__init__.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/find_tls_groups.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/matthews.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/pdb_interpretation.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/fake_f_obs.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/rank_scale_map.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/estimate_bijvoet_ratio.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/tls_as_xyz.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/real_space_correlation.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/superpose.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/cablam_idealization.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/refine_anomalous_substructure.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/show_r_factors_by_shell.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/rna_validate_puckers.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/molprobity.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/clashscore2.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/pdb_atom_selection.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/mp_geo.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/kinemage.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/development_fem.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/map_box.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/validate_ligands.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/r_factor_statistics.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/secondary_structure_validation.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/find_residue_in_pdb.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/rna_validate.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/validation_summary.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/model_map.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/prepare_pdb_deposition.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/tls.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/nonbonded_overlaps.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/map_to_structure_factors.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/emringer.py -> build/lib/mmtbx/command_line copying mmtbx/command_line/omegalyze.py -> build/lib/mmtbx/command_line creating build/lib/mmtbx/rotamer copying mmtbx/rotamer/n_dim_table.py -> build/lib/mmtbx/rotamer copying mmtbx/rotamer/nqh.py -> build/lib/mmtbx/rotamer copying mmtbx/rotamer/ramachandran_eval.py -> build/lib/mmtbx/rotamer copying mmtbx/rotamer/ramachandran_eval_deprecated.py -> build/lib/mmtbx/rotamer copying mmtbx/rotamer/tst_geostd_vs_sidechain_angles_props.py -> build/lib/mmtbx/rotamer copying mmtbx/rotamer/rotamer_eval.py -> build/lib/mmtbx/rotamer copying mmtbx/rotamer/tst_rotamer_eval.py -> build/lib/mmtbx/rotamer copying mmtbx/rotamer/__init__.py -> build/lib/mmtbx/rotamer copying mmtbx/rotamer/graphics.py -> build/lib/mmtbx/rotamer copying mmtbx/rotamer/sidechain_angles.py -> build/lib/mmtbx/rotamer creating build/lib/mmtbx/den copying mmtbx/den/refinement.py -> build/lib/mmtbx/den copying mmtbx/den/__init__.py -> build/lib/mmtbx/den copying mmtbx/den/plot_weights.py -> build/lib/mmtbx/den creating build/lib/mmtbx/twinning copying mmtbx/twinning/probabalistic_detwinning.py -> build/lib/mmtbx/twinning copying mmtbx/twinning/twin_f_model.py -> build/lib/mmtbx/twinning copying mmtbx/twinning/__init__.py -> build/lib/mmtbx/twinning creating build/lib/mmtbx/masks copying mmtbx/masks/tst_masks.py -> build/lib/mmtbx/masks copying mmtbx/masks/__init__.py -> build/lib/mmtbx/masks copying mmtbx/masks/tst_asu_mask.py -> build/lib/mmtbx/masks creating build/lib/mmtbx/probe copying mmtbx/probe/tst_mmtbx_probe_ext.py -> build/lib/mmtbx/probe copying mmtbx/probe/CompareOriginalAndNewProbeAtomInfo.py -> build/lib/mmtbx/probe copying mmtbx/probe/Helpers.py -> build/lib/mmtbx/probe copying mmtbx/probe/__init__.py -> build/lib/mmtbx/probe copying mmtbx/probe/AtomTypes.py -> build/lib/mmtbx/probe creating build/lib/mmtbx/solvent copying mmtbx/solvent/map_to_water.py -> build/lib/mmtbx/solvent copying mmtbx/solvent/ordered_solvent.py -> build/lib/mmtbx/solvent copying mmtbx/solvent/__init__.py -> build/lib/mmtbx/solvent copying mmtbx/solvent/ensemble_ordered_solvent.py -> build/lib/mmtbx/solvent creating build/lib/mmtbx/reduce copying mmtbx/reduce/InteractionGraph.py -> build/lib/mmtbx/reduce copying mmtbx/reduce/Movers.py -> build/lib/mmtbx/reduce copying mmtbx/reduce/tst_mmtbx_reduce_ext.py -> build/lib/mmtbx/reduce copying mmtbx/reduce/Optimizers.py -> build/lib/mmtbx/reduce copying mmtbx/reduce/__init__.py -> build/lib/mmtbx/reduce creating build/lib/mmtbx/atomic_environment_vectors copying mmtbx/atomic_environment_vectors/__init__.py -> build/lib/mmtbx/atomic_environment_vectors copying mmtbx/atomic_environment_vectors/tst.py -> build/lib/mmtbx/atomic_environment_vectors creating build/lib/mmtbx/maps copying mmtbx/maps/map_model_cc.py -> build/lib/mmtbx/maps copying mmtbx/maps/polder.py -> build/lib/mmtbx/maps copying mmtbx/maps/xtrapol8.py -> build/lib/mmtbx/maps copying mmtbx/maps/fem.py -> build/lib/mmtbx/maps copying mmtbx/maps/fobs_minus_fobs_map.py -> build/lib/mmtbx/maps copying mmtbx/maps/tst_correlation.py -> build/lib/mmtbx/maps copying mmtbx/maps/tst_composite_omit_map_3.py -> build/lib/mmtbx/maps copying mmtbx/maps/tst_composite_omit_map.py -> build/lib/mmtbx/maps copying mmtbx/maps/correlation.py -> build/lib/mmtbx/maps copying mmtbx/maps/kick.py -> build/lib/mmtbx/maps copying mmtbx/maps/composite_omit_map.py -> build/lib/mmtbx/maps copying mmtbx/maps/__init__.py -> build/lib/mmtbx/maps copying mmtbx/maps/superpose.py -> build/lib/mmtbx/maps copying mmtbx/maps/tst_composite_omit_map_2.py -> build/lib/mmtbx/maps copying mmtbx/maps/tst_map_model_cc_and_vals_per_atom_xtal.py -> build/lib/mmtbx/maps copying mmtbx/maps/mtriage.py -> build/lib/mmtbx/maps copying mmtbx/maps/utils.py -> build/lib/mmtbx/maps creating build/lib/mmtbx/secondary_structure copying mmtbx/secondary_structure/tst_segid.py -> build/lib/mmtbx/secondary_structure copying mmtbx/secondary_structure/secondary_structure_params.py -> build/lib/mmtbx/secondary_structure copying mmtbx/secondary_structure/ss_validation.py -> build/lib/mmtbx/secondary_structure copying mmtbx/secondary_structure/regularize_from_pdb.py -> build/lib/mmtbx/secondary_structure copying mmtbx/secondary_structure/tst_insertion_codes.py -> build/lib/mmtbx/secondary_structure copying mmtbx/secondary_structure/nucleic_acids.py -> build/lib/mmtbx/secondary_structure copying mmtbx/secondary_structure/find_ss_from_ca.py -> build/lib/mmtbx/secondary_structure copying mmtbx/secondary_structure/proteins.py -> build/lib/mmtbx/secondary_structure copying mmtbx/secondary_structure/__init__.py -> build/lib/mmtbx/secondary_structure copying mmtbx/secondary_structure/tst.py -> build/lib/mmtbx/secondary_structure copying mmtbx/secondary_structure/utils.py -> build/lib/mmtbx/secondary_structure creating build/lib/mmtbx/chemical_components copying mmtbx/chemical_components/cif_parser.py -> build/lib/mmtbx/chemical_components copying mmtbx/chemical_components/__init__.py -> build/lib/mmtbx/chemical_components copying mmtbx/chemical_components/tst.py -> build/lib/mmtbx/chemical_components creating build/lib/mmtbx/geometry copying mmtbx/geometry/asa.py -> build/lib/mmtbx/geometry copying mmtbx/geometry/topology.py -> build/lib/mmtbx/geometry copying mmtbx/geometry/sphere_surface_sampling.py -> build/lib/mmtbx/geometry copying mmtbx/geometry/indexing.py -> build/lib/mmtbx/geometry copying mmtbx/geometry/__init__.py -> build/lib/mmtbx/geometry copying mmtbx/geometry/clash.py -> build/lib/mmtbx/geometry copying mmtbx/geometry/shared_types.py -> build/lib/mmtbx/geometry copying mmtbx/geometry/altloc.py -> build/lib/mmtbx/geometry creating build/lib/mmtbx/sisa copying mmtbx/sisa/__init__.py -> build/lib/mmtbx/sisa creating build/lib/mmtbx/idealized_aa_residues copying mmtbx/idealized_aa_residues/all_his.py -> build/lib/mmtbx/idealized_aa_residues copying mmtbx/idealized_aa_residues/__init__.py -> build/lib/mmtbx/idealized_aa_residues copying mmtbx/idealized_aa_residues/rotamer_manager.py -> build/lib/mmtbx/idealized_aa_residues copying mmtbx/idealized_aa_residues/sample_rotamers.py -> build/lib/mmtbx/idealized_aa_residues copying mmtbx/idealized_aa_residues/tst.py -> build/lib/mmtbx/idealized_aa_residues creating build/lib/mmtbx/tls copying mmtbx/tls/perm14.py -> build/lib/mmtbx/tls copying mmtbx/tls/perm12.py -> build/lib/mmtbx/tls copying mmtbx/tls/decompose.py -> build/lib/mmtbx/tls copying mmtbx/tls/perm10.py -> build/lib/mmtbx/tls copying mmtbx/tls/perm13.py -> build/lib/mmtbx/tls copying mmtbx/tls/perm11.py -> build/lib/mmtbx/tls copying mmtbx/tls/ladp.py -> build/lib/mmtbx/tls copying mmtbx/tls/perm15.py -> build/lib/mmtbx/tls copying mmtbx/tls/optimise_amplitudes.py -> build/lib/mmtbx/tls copying mmtbx/tls/tools.py -> build/lib/mmtbx/tls copying mmtbx/tls/analysis.py -> build/lib/mmtbx/tls copying mmtbx/tls/__init__.py -> build/lib/mmtbx/tls copying mmtbx/tls/tls_as_xyz.py -> build/lib/mmtbx/tls copying mmtbx/tls/command_line.py -> build/lib/mmtbx/tls copying mmtbx/tls/utils.py -> build/lib/mmtbx/tls creating build/lib/mmtbx/f_model copying mmtbx/f_model/f_model.py -> build/lib/mmtbx/f_model copying mmtbx/f_model/__init__.py -> build/lib/mmtbx/f_model copying mmtbx/f_model/f_model_info.py -> build/lib/mmtbx/f_model creating build/lib/mmtbx/ions copying mmtbx/ions/tst_pick_k.py -> build/lib/mmtbx/ions copying mmtbx/ions/environment.py -> build/lib/mmtbx/ions copying mmtbx/ions/tst_geometries.py -> build/lib/mmtbx/ions copying mmtbx/ions/tst_parameters.py -> build/lib/mmtbx/ions copying mmtbx/ions/tst_utils.py -> build/lib/mmtbx/ions copying mmtbx/ions/tst_pick_ca.py -> build/lib/mmtbx/ions copying mmtbx/ions/tst_validate_ca.py -> build/lib/mmtbx/ions copying mmtbx/ions/tst_pick_ca_svm.py -> build/lib/mmtbx/ions copying mmtbx/ions/tst_environment.py -> build/lib/mmtbx/ions copying mmtbx/ions/tst_pick_approx_zn.py -> build/lib/mmtbx/ions copying mmtbx/ions/halides.py -> build/lib/mmtbx/ions copying mmtbx/ions/tst_validate_mg.py -> build/lib/mmtbx/ions copying mmtbx/ions/__init__.py -> build/lib/mmtbx/ions copying mmtbx/ions/tst_pick_mg.py -> build/lib/mmtbx/ions copying mmtbx/ions/geometry.py -> build/lib/mmtbx/ions copying mmtbx/ions/tst_pickle.py -> build/lib/mmtbx/ions copying mmtbx/ions/identify.py -> build/lib/mmtbx/ions copying mmtbx/ions/build.py -> build/lib/mmtbx/ions copying mmtbx/ions/tst_symmetry_axis.py -> build/lib/mmtbx/ions copying mmtbx/ions/utils.py -> build/lib/mmtbx/ions creating build/lib/mmtbx/density_modification copying mmtbx/density_modification/__init__.py -> build/lib/mmtbx/density_modification copying mmtbx/density_modification/tst_density_modification.py -> build/lib/mmtbx/density_modification creating build/lib/mmtbx/polygon copying mmtbx/polygon/tst_polygon_data.py -> build/lib/mmtbx/polygon copying mmtbx/polygon/tst_gui.py -> build/lib/mmtbx/polygon copying mmtbx/polygon/__init__.py -> build/lib/mmtbx/polygon copying mmtbx/polygon/output.py -> build/lib/mmtbx/polygon copying mmtbx/polygon/tst.py -> build/lib/mmtbx/polygon creating build/lib/mmtbx/regression copying mmtbx/regression/tst_clashes.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_polder_box.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_anomalous_substructure.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_find_ncs.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_mtz2map.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_polder_1.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_cif_as_mtz_wavelengths.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_altloc_chain_break.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_table_one.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_apply_cif_restraints.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_model_vs_sequence.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_multi_residue_class.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_reduce.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_process_predicted_model.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_validation_summary.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_metal_link_1.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_maps_misc.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_origin_ids.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_arginine_geometry.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_command_line_input.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_cc_star.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_mmtbx_refinement_wrappers_1.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_fmodel_2.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_find_ss_structure_cif.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_fmodel_fd.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_sampled_model_density.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_rigid_bond_test.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_refine_anomalous_substructure.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_reduce_timeout.py -> build/lib/mmtbx/regression copying mmtbx/regression/make_fake_anomalous_data.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_validate_ligands_2.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_msa.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_schrodinger_interface.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_geo_min_restraints_phil.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_adp_restraints.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_utils.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_domains_from_pae.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_fmodel_no_cryst1.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_mmtbx_refinement_wrappers_2.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_ribbons.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_geometry_minimization.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_regularize_from_pdb.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_isomorphous_difference_misc.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_fmodel_misc.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_special_term_at_end.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_polder_ccs.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_polder_2.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_add_h_to_water.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_models_to_from_chains.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_process_predicted_model_cif.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_helix_sheet_recs_as_pdb_files.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_mmtbx_refinement_wrappers.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_reduce_cryoem_resolution.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_polder.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_prune_model.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_loop_closure.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_fmodel_and_dm.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_regularize_from_pdb_cif.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_altloc_remediate.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_probe.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_map_model_cc.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_find_ss_structure.py -> build/lib/mmtbx/regression copying mmtbx/regression/__init__.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_rank_scale_map.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_chain_comparison.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_polder_4.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_examples.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_sequence_validation.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_scattering_type_registry.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_add_arrows_on_plot.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_scattering_table.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_flipping_his.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_dynamics_cli.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_polder_3.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_alignment.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_real_space_correlation.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_model_vs_map.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_chain_comparison_cif.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_angle.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_ligand_ncs.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_fmodel.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_sort_hetatms.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_domains_from_pae_cif.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_map_type_parser.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_holton_geometry_validation.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_validate_ligands.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_cis_trans_peptide_link.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_psi_phi_extraction.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_minimize_chain.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_ml_estimate.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_rdkit_utils_fragmentation.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_statistics_output.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_model_map.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_ringer.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_pdbtools.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_lrv.py -> build/lib/mmtbx/regression copying mmtbx/regression/tst_superpose.py -> build/lib/mmtbx/regression creating build/lib/mmtbx/geometry_restraints copying mmtbx/geometry_restraints/quantum_restraints_manager.py -> build/lib/mmtbx/geometry_restraints copying mmtbx/geometry_restraints/tst_c_beta_restraints.py -> build/lib/mmtbx/geometry_restraints copying mmtbx/geometry_restraints/tst_manager.py -> build/lib/mmtbx/geometry_restraints copying mmtbx/geometry_restraints/tst_geo_file_parsing.py -> build/lib/mmtbx/geometry_restraints copying mmtbx/geometry_restraints/qm_manager.py -> build/lib/mmtbx/geometry_restraints copying mmtbx/geometry_restraints/tst_ramachandran.py -> build/lib/mmtbx/geometry_restraints copying mmtbx/geometry_restraints/tst_reference_coordinate2.py -> build/lib/mmtbx/geometry_restraints copying mmtbx/geometry_restraints/external.py -> build/lib/mmtbx/geometry_restraints copying mmtbx/geometry_restraints/reference.py -> build/lib/mmtbx/geometry_restraints copying mmtbx/geometry_restraints/c_beta.py -> build/lib/mmtbx/geometry_restraints copying mmtbx/geometry_restraints/mopac_manager.py -> build/lib/mmtbx/geometry_restraints copying mmtbx/geometry_restraints/geo_file_parsing.py -> build/lib/mmtbx/geometry_restraints copying mmtbx/geometry_restraints/base_qm_manager.py -> build/lib/mmtbx/geometry_restraints copying mmtbx/geometry_restraints/quantum_interface.py -> build/lib/mmtbx/geometry_restraints copying mmtbx/geometry_restraints/__init__.py -> build/lib/mmtbx/geometry_restraints copying mmtbx/geometry_restraints/afitt.py -> build/lib/mmtbx/geometry_restraints copying mmtbx/geometry_restraints/tst_reference_coordinate.py -> build/lib/mmtbx/geometry_restraints copying mmtbx/geometry_restraints/ramachandran.py -> build/lib/mmtbx/geometry_restraints copying mmtbx/geometry_restraints/qi_utils.py -> build/lib/mmtbx/geometry_restraints copying mmtbx/geometry_restraints/orca_manager.py -> build/lib/mmtbx/geometry_restraints creating build/lib/mmtbx/scaling copying mmtbx/scaling/remove_outliers.py -> build/lib/mmtbx/scaling copying mmtbx/scaling/bayesian_estimator.py -> build/lib/mmtbx/scaling copying mmtbx/scaling/relative_wilson.py -> build/lib/mmtbx/scaling copying mmtbx/scaling/tst_xtriage_twin_analyses.py -> build/lib/mmtbx/scaling copying mmtbx/scaling/relative_scaling.py -> build/lib/mmtbx/scaling copying mmtbx/scaling/plan_sad_experiment.py -> build/lib/mmtbx/scaling copying mmtbx/scaling/pair_analyses.py -> build/lib/mmtbx/scaling copying mmtbx/scaling/twin_analyses.py -> build/lib/mmtbx/scaling copying mmtbx/scaling/xtriage.py -> build/lib/mmtbx/scaling copying mmtbx/scaling/pre_scale.py -> build/lib/mmtbx/scaling copying mmtbx/scaling/sigmaa_estimation.py -> build/lib/mmtbx/scaling copying mmtbx/scaling/thorough_outlier_test.py -> build/lib/mmtbx/scaling copying mmtbx/scaling/tst_scaling.py -> build/lib/mmtbx/scaling copying mmtbx/scaling/absence_likelihood.py -> build/lib/mmtbx/scaling copying mmtbx/scaling/tst_outlier.py -> build/lib/mmtbx/scaling copying mmtbx/scaling/massage_twin_detwin_data.py -> build/lib/mmtbx/scaling copying mmtbx/scaling/tst_sigmaa.py -> build/lib/mmtbx/scaling copying mmtbx/scaling/absolute_scaling.py -> build/lib/mmtbx/scaling copying mmtbx/scaling/random_omit.py -> build/lib/mmtbx/scaling copying mmtbx/scaling/data_statistics.py -> build/lib/mmtbx/scaling copying mmtbx/scaling/make_param.py -> build/lib/mmtbx/scaling copying mmtbx/scaling/fa_estimation.py -> build/lib/mmtbx/scaling copying mmtbx/scaling/__init__.py -> build/lib/mmtbx/scaling copying mmtbx/scaling/matthews.py -> build/lib/mmtbx/scaling copying mmtbx/scaling/twmad_scale.py -> build/lib/mmtbx/scaling copying mmtbx/scaling/tst_xtriage.py -> build/lib/mmtbx/scaling copying mmtbx/scaling/tst_bayesian_estimator.py -> build/lib/mmtbx/scaling copying mmtbx/scaling/absences.py -> build/lib/mmtbx/scaling copying mmtbx/scaling/tst_massage_data.py -> build/lib/mmtbx/scaling copying mmtbx/scaling/ta_alpha_beta_calc.py -> build/lib/mmtbx/scaling copying mmtbx/scaling/outlier_plots.py -> build/lib/mmtbx/scaling copying mmtbx/scaling/tst_mean_f_rms_f.py -> build/lib/mmtbx/scaling copying mmtbx/scaling/outlier_rejection.py -> build/lib/mmtbx/scaling copying mmtbx/scaling/mean_f_rms_f.py -> build/lib/mmtbx/scaling copying mmtbx/scaling/tst_plan_sad_experiment.py -> build/lib/mmtbx/scaling copying mmtbx/scaling/basic_analyses.py -> build/lib/mmtbx/scaling copying mmtbx/scaling/tst_absences.py -> build/lib/mmtbx/scaling creating build/lib/mmtbx/disorder copying mmtbx/disorder/tst_analyze_model.py -> build/lib/mmtbx/disorder copying mmtbx/disorder/tst_backbone.py -> build/lib/mmtbx/disorder copying mmtbx/disorder/analyze_model.py -> build/lib/mmtbx/disorder copying mmtbx/disorder/backbone.py -> build/lib/mmtbx/disorder copying mmtbx/disorder/__init__.py -> build/lib/mmtbx/disorder copying mmtbx/disorder/tst.py -> build/lib/mmtbx/disorder creating build/lib/mmtbx/wwpdb copying mmtbx/wwpdb/tst_rcsb_entry_request.py -> build/lib/mmtbx/wwpdb copying mmtbx/wwpdb/rcsb_entry_request.py -> build/lib/mmtbx/wwpdb copying mmtbx/wwpdb/__init__.py -> build/lib/mmtbx/wwpdb copying mmtbx/wwpdb/rcsb_web_services.py -> build/lib/mmtbx/wwpdb copying mmtbx/wwpdb/tst_rcsb_web_services.py -> build/lib/mmtbx/wwpdb creating build/lib/mmtbx/pair_interaction copying mmtbx/pair_interaction/pair_interaction.py -> build/lib/mmtbx/pair_interaction copying mmtbx/pair_interaction/tst_04.py -> build/lib/mmtbx/pair_interaction copying mmtbx/pair_interaction/tst_00.py -> build/lib/mmtbx/pair_interaction copying mmtbx/pair_interaction/__init__.py -> build/lib/mmtbx/pair_interaction copying mmtbx/pair_interaction/tst_01.py -> build/lib/mmtbx/pair_interaction copying mmtbx/pair_interaction/tst_02.py -> build/lib/mmtbx/pair_interaction copying mmtbx/pair_interaction/tst_05.py -> build/lib/mmtbx/pair_interaction copying mmtbx/pair_interaction/tst_03.py -> build/lib/mmtbx/pair_interaction creating build/lib/mmtbx/refinement copying mmtbx/refinement/rigid_body.py -> build/lib/mmtbx/refinement copying mmtbx/refinement/flip_peptide_side_chain.py -> build/lib/mmtbx/refinement copying mmtbx/refinement/tst_real_space_simple.py -> build/lib/mmtbx/refinement copying mmtbx/refinement/minimization_ncs_constraints.py -> build/lib/mmtbx/refinement copying mmtbx/refinement/weights_params.py -> build/lib/mmtbx/refinement copying mmtbx/refinement/group.py -> build/lib/mmtbx/refinement copying mmtbx/refinement/energy_monitor.py -> build/lib/mmtbx/refinement copying mmtbx/refinement/weights.py -> build/lib/mmtbx/refinement copying mmtbx/refinement/tst_refinement_flags.py -> build/lib/mmtbx/refinement copying mmtbx/refinement/wx_tardy_pdb.py -> build/lib/mmtbx/refinement copying mmtbx/refinement/tst_select_best_starting_model.py -> build/lib/mmtbx/refinement copying mmtbx/refinement/select_best_starting_model.py -> build/lib/mmtbx/refinement copying mmtbx/refinement/tst_rigid_body.py -> build/lib/mmtbx/refinement copying mmtbx/refinement/minimization_monitor.py -> build/lib/mmtbx/refinement copying mmtbx/refinement/adp_refinement.py -> build/lib/mmtbx/refinement copying mmtbx/refinement/minimization.py -> build/lib/mmtbx/refinement copying mmtbx/refinement/tst_occupancy_selections.py -> build/lib/mmtbx/refinement copying mmtbx/refinement/geometry_minimization.py -> build/lib/mmtbx/refinement copying mmtbx/refinement/tst_rigid_body_groups_from_pdb_chains.py -> build/lib/mmtbx/refinement copying mmtbx/refinement/tst_misc.py -> build/lib/mmtbx/refinement copying mmtbx/refinement/tst_anomalous_scatterer_groups.py -> build/lib/mmtbx/refinement copying mmtbx/refinement/anomalous_scatterer_groups.py -> build/lib/mmtbx/refinement copying mmtbx/refinement/tst_fit_rotamers.py -> build/lib/mmtbx/refinement copying mmtbx/refinement/wrappers.py -> build/lib/mmtbx/refinement copying mmtbx/refinement/tst_group_2.py -> build/lib/mmtbx/refinement copying mmtbx/refinement/print_statistics.py -> build/lib/mmtbx/refinement copying mmtbx/refinement/occupancies.py -> build/lib/mmtbx/refinement copying mmtbx/refinement/__init__.py -> build/lib/mmtbx/refinement copying mmtbx/refinement/orca.py -> build/lib/mmtbx/refinement copying mmtbx/refinement/inspect_tardy_trajectory.py -> build/lib/mmtbx/refinement copying mmtbx/refinement/tardy.py -> build/lib/mmtbx/refinement copying mmtbx/refinement/tst_group.py -> build/lib/mmtbx/refinement copying mmtbx/refinement/data.py -> build/lib/mmtbx/refinement copying mmtbx/refinement/targets.py -> build/lib/mmtbx/refinement copying mmtbx/refinement/utils.py -> build/lib/mmtbx/refinement copying mmtbx/refinement/restraints.py -> build/lib/mmtbx/refinement copying mmtbx/refinement/calculators.py -> build/lib/mmtbx/refinement copying mmtbx/refinement/refinement_flags.py -> build/lib/mmtbx/refinement creating build/lib/mmtbx/nci copying mmtbx/nci/hbond.py -> build/lib/mmtbx/nci copying mmtbx/nci/__init__.py -> build/lib/mmtbx/nci copying mmtbx/nci/data_filtering.py -> build/lib/mmtbx/nci copying mmtbx/nci/skew_kurt_plot.py -> build/lib/mmtbx/nci copying mmtbx/nci/tst_hbond.py -> build/lib/mmtbx/nci creating build/lib/mmtbx/monomer_library copying mmtbx/monomer_library/tst_paral_geo.py -> build/lib/mmtbx/monomer_library copying mmtbx/monomer_library/tst_tyr_from_gly_and_bnz.py -> build/lib/mmtbx/monomer_library copying mmtbx/monomer_library/tst_pdb_interpretation_5.py -> build/lib/mmtbx/monomer_library copying mmtbx/monomer_library/tst_motif.py -> build/lib/mmtbx/monomer_library copying mmtbx/monomer_library/tst_glyco_hand.py -> build/lib/mmtbx/monomer_library copying mmtbx/monomer_library/server.py -> build/lib/mmtbx/monomer_library copying mmtbx/monomer_library/tst_user_supplied_library.py -> build/lib/mmtbx/monomer_library copying mmtbx/monomer_library/tst_glyco_coordination.py -> build/lib/mmtbx/monomer_library copying mmtbx/monomer_library/conformation_dependent_restraints.py -> build/lib/mmtbx/monomer_library copying mmtbx/monomer_library/linking_mixins.py -> build/lib/mmtbx/monomer_library copying mmtbx/monomer_library/linking_utils.py -> build/lib/mmtbx/monomer_library copying mmtbx/monomer_library/geostd_utils.py -> build/lib/mmtbx/monomer_library copying mmtbx/monomer_library/mmtbx_utils.py -> build/lib/mmtbx/monomer_library copying mmtbx/monomer_library/tst_pdb_interpretation.py -> build/lib/mmtbx/monomer_library copying mmtbx/monomer_library/tst_correct_hydrogens.py -> build/lib/mmtbx/monomer_library copying mmtbx/monomer_library/tst_pdb_interpretation_ncs_processing.py -> build/lib/mmtbx/monomer_library copying mmtbx/monomer_library/rotamer_utils.py -> build/lib/mmtbx/monomer_library copying mmtbx/monomer_library/tst_linking.py -> build/lib/mmtbx/monomer_library copying mmtbx/monomer_library/linking_setup.py -> build/lib/mmtbx/monomer_library copying mmtbx/monomer_library/tst_selection.py -> build/lib/mmtbx/monomer_library copying mmtbx/monomer_library/cif_types.py -> build/lib/mmtbx/monomer_library copying mmtbx/monomer_library/conv_v2_v3.py -> build/lib/mmtbx/monomer_library copying mmtbx/monomer_library/tst_neutron_distance.py -> build/lib/mmtbx/monomer_library copying mmtbx/monomer_library/tst_pdb_interpretation_3.py -> build/lib/mmtbx/monomer_library copying mmtbx/monomer_library/hydrogen_restrictions.py -> build/lib/mmtbx/monomer_library copying mmtbx/monomer_library/idealized_aa.py -> build/lib/mmtbx/monomer_library copying mmtbx/monomer_library/tst_superpose_ideal.py -> build/lib/mmtbx/monomer_library copying mmtbx/monomer_library/tst_cif_triage.py -> build/lib/mmtbx/monomer_library copying mmtbx/monomer_library/tst_rna_sugar_pucker_analysis.py -> build/lib/mmtbx/monomer_library copying mmtbx/monomer_library/tst_metal_coordination.py -> build/lib/mmtbx/monomer_library copying mmtbx/monomer_library/__init__.py -> build/lib/mmtbx/monomer_library copying mmtbx/monomer_library/pdb_interpretation.py -> build/lib/mmtbx/monomer_library copying mmtbx/monomer_library/glyco_utils.py -> build/lib/mmtbx/monomer_library copying mmtbx/monomer_library/tst_pdb_interpretation_4.py -> build/lib/mmtbx/monomer_library copying mmtbx/monomer_library/bondlength_defaults.py -> build/lib/mmtbx/monomer_library copying mmtbx/monomer_library/correct_hydrogen_geometries.py -> build/lib/mmtbx/monomer_library copying mmtbx/monomer_library/tst_cif_types.py -> build/lib/mmtbx/monomer_library copying mmtbx/monomer_library/rna_sugar_pucker_analysis.py -> build/lib/mmtbx/monomer_library copying mmtbx/monomer_library/tst_all_cif_files.py -> build/lib/mmtbx/monomer_library copying mmtbx/monomer_library/tst_rotamer_utils.py -> build/lib/mmtbx/monomer_library copying mmtbx/monomer_library/tst_chg.py -> build/lib/mmtbx/monomer_library copying mmtbx/monomer_library/tst_iron_sulfur_clusters.py -> build/lib/mmtbx/monomer_library copying mmtbx/monomer_library/tst_deuterium_terminii.py -> build/lib/mmtbx/monomer_library copying mmtbx/monomer_library/tst_server.py -> build/lib/mmtbx/monomer_library copying mmtbx/monomer_library/tst_protein_interpretation.py -> build/lib/mmtbx/monomer_library copying mmtbx/monomer_library/populate_auto_linking_origin_ids.py -> build/lib/mmtbx/monomer_library copying mmtbx/monomer_library/cif_triage.py -> build/lib/mmtbx/monomer_library copying mmtbx/monomer_library/tst_pdb_interpretation_2.py -> build/lib/mmtbx/monomer_library copying mmtbx/monomer_library/tst_geo_reduce_for_tardy.py -> build/lib/mmtbx/monomer_library copying mmtbx/monomer_library/tst_rna_dna_interpretation.py -> build/lib/mmtbx/monomer_library copying mmtbx/monomer_library/tst_idealized_aa.py -> build/lib/mmtbx/monomer_library copying mmtbx/monomer_library/tst_carbo_linking.py -> build/lib/mmtbx/monomer_library copying mmtbx/monomer_library/glyco_chiral_values.py -> build/lib/mmtbx/monomer_library creating build/lib/mmtbx/ligands copying mmtbx/ligands/tst_xtal_screens.py -> build/lib/mmtbx/ligands copying mmtbx/ligands/hierarchy_utils.py -> build/lib/mmtbx/ligands copying mmtbx/ligands/tst_ready_set_utils.py -> build/lib/mmtbx/ligands copying mmtbx/ligands/ready_set_utils.py -> build/lib/mmtbx/ligands copying mmtbx/ligands/chemistry.py -> build/lib/mmtbx/ligands copying mmtbx/ligands/ready_set_basics.py -> build/lib/mmtbx/ligands copying mmtbx/ligands/elbow_utils.py -> build/lib/mmtbx/ligands copying mmtbx/ligands/electrons.py -> build/lib/mmtbx/ligands copying mmtbx/ligands/rdkit_utils.py -> build/lib/mmtbx/ligands copying mmtbx/ligands/__init__.py -> build/lib/mmtbx/ligands copying mmtbx/ligands/tst_electron_scripting.py -> build/lib/mmtbx/ligands copying mmtbx/ligands/xtal_screens.py -> build/lib/mmtbx/ligands creating build/lib/mmtbx/model copying mmtbx/model/model.py -> build/lib/mmtbx/model copying mmtbx/model/__init__.py -> build/lib/mmtbx/model copying mmtbx/model/statistics.py -> build/lib/mmtbx/model copying mmtbx/model/utils.py -> build/lib/mmtbx/model copying mmtbx/model/restraints.py -> build/lib/mmtbx/model creating build/lib/mmtbx/kinemage copying mmtbx/kinemage/validation.py -> build/lib/mmtbx/kinemage copying mmtbx/kinemage/ribbons.py -> build/lib/mmtbx/kinemage copying mmtbx/kinemage/nrubs.py -> build/lib/mmtbx/kinemage copying mmtbx/kinemage/__init__.py -> build/lib/mmtbx/kinemage creating build/lib/mmtbx/utils copying mmtbx/utils/rotatable_bonds.py -> build/lib/mmtbx/utils copying mmtbx/utils/ntc.py -> build/lib/mmtbx/utils copying mmtbx/utils/fab_elbow_angle.py -> build/lib/mmtbx/utils copying mmtbx/utils/grid2d.py -> build/lib/mmtbx/utils copying mmtbx/utils/__init__.py -> build/lib/mmtbx/utils copying mmtbx/utils/tst_switch_rotamers.py -> build/lib/mmtbx/utils creating build/lib/mmtbx/conformation_dependent_library copying mmtbx/conformation_dependent_library/cdl_database.py -> build/lib/mmtbx/conformation_dependent_library copying mmtbx/conformation_dependent_library/tst_multi_residue_rna.py -> build/lib/mmtbx/conformation_dependent_library copying mmtbx/conformation_dependent_library/omega_database.py -> build/lib/mmtbx/conformation_dependent_library copying mmtbx/conformation_dependent_library/cdl_svl_database.py -> build/lib/mmtbx/conformation_dependent_library copying mmtbx/conformation_dependent_library/mcl.py -> build/lib/mmtbx/conformation_dependent_library copying mmtbx/conformation_dependent_library/altloc_weighting.py -> build/lib/mmtbx/conformation_dependent_library copying mmtbx/conformation_dependent_library/hpdl_database.py -> build/lib/mmtbx/conformation_dependent_library copying mmtbx/conformation_dependent_library/testing_utils.py -> build/lib/mmtbx/conformation_dependent_library copying mmtbx/conformation_dependent_library/multi_residue_class.py -> build/lib/mmtbx/conformation_dependent_library copying mmtbx/conformation_dependent_library/cdl_utils.py -> build/lib/mmtbx/conformation_dependent_library copying mmtbx/conformation_dependent_library/LinkedResidues.py -> build/lib/mmtbx/conformation_dependent_library copying mmtbx/conformation_dependent_library/cdl_setup.py -> build/lib/mmtbx/conformation_dependent_library copying mmtbx/conformation_dependent_library/tst_enol_peptide.py -> build/lib/mmtbx/conformation_dependent_library copying mmtbx/conformation_dependent_library/multi_base_class.py -> build/lib/mmtbx/conformation_dependent_library copying mmtbx/conformation_dependent_library/tst_rdl.py -> build/lib/mmtbx/conformation_dependent_library copying mmtbx/conformation_dependent_library/tst_mutli_residue.py -> build/lib/mmtbx/conformation_dependent_library copying mmtbx/conformation_dependent_library/tst_hpdl.py -> build/lib/mmtbx/conformation_dependent_library copying mmtbx/conformation_dependent_library/tst_pH_mechanism.py -> build/lib/mmtbx/conformation_dependent_library copying mmtbx/conformation_dependent_library/tst_mcl_02.py -> build/lib/mmtbx/conformation_dependent_library copying mmtbx/conformation_dependent_library/bond_angle_registry.py -> build/lib/mmtbx/conformation_dependent_library copying mmtbx/conformation_dependent_library/tst_mcl_03.py -> build/lib/mmtbx/conformation_dependent_library copying mmtbx/conformation_dependent_library/rdl_database.py -> build/lib/mmtbx/conformation_dependent_library copying mmtbx/conformation_dependent_library/multi_residue_cdl_class.py -> build/lib/mmtbx/conformation_dependent_library copying mmtbx/conformation_dependent_library/tst_omega_cdl.py -> build/lib/mmtbx/conformation_dependent_library copying mmtbx/conformation_dependent_library/metal_coordination_library.py -> build/lib/mmtbx/conformation_dependent_library copying mmtbx/conformation_dependent_library/rotamers.py -> build/lib/mmtbx/conformation_dependent_library copying mmtbx/conformation_dependent_library/tst_cdl_nucleotides.py -> build/lib/mmtbx/conformation_dependent_library copying mmtbx/conformation_dependent_library/check_cdl_database.py -> build/lib/mmtbx/conformation_dependent_library copying mmtbx/conformation_dependent_library/tst_cis_c_n_ca.py -> build/lib/mmtbx/conformation_dependent_library copying mmtbx/conformation_dependent_library/__init__.py -> build/lib/mmtbx/conformation_dependent_library copying mmtbx/conformation_dependent_library/nucleotides.py -> build/lib/mmtbx/conformation_dependent_library copying mmtbx/conformation_dependent_library/pH_dependent_restraints.py -> build/lib/mmtbx/conformation_dependent_library copying mmtbx/conformation_dependent_library/tst_mcl_01.py -> build/lib/mmtbx/conformation_dependent_library copying mmtbx/conformation_dependent_library/mcl_sf4_coordination.py -> build/lib/mmtbx/conformation_dependent_library copying mmtbx/conformation_dependent_library/omega.py -> build/lib/mmtbx/conformation_dependent_library copying mmtbx/conformation_dependent_library/density_dependent_restraints.py -> build/lib/mmtbx/conformation_dependent_library copying mmtbx/conformation_dependent_library/histidines.py -> build/lib/mmtbx/conformation_dependent_library copying mmtbx/conformation_dependent_library/tst_poly_ca_multi_residue.py -> build/lib/mmtbx/conformation_dependent_library copying mmtbx/conformation_dependent_library/sf4_restraints.py -> build/lib/mmtbx/conformation_dependent_library copying mmtbx/conformation_dependent_library/enol_peptide_restraints.py -> build/lib/mmtbx/conformation_dependent_library copying mmtbx/conformation_dependent_library/investigate_rotamer_space.py -> build/lib/mmtbx/conformation_dependent_library copying mmtbx/conformation_dependent_library/hydrogen_bonding.py -> build/lib/mmtbx/conformation_dependent_library copying mmtbx/conformation_dependent_library/tst_cdl_esd.py -> build/lib/mmtbx/conformation_dependent_library copying mmtbx/conformation_dependent_library/tst_cdl.py -> build/lib/mmtbx/conformation_dependent_library copying mmtbx/conformation_dependent_library/tst_rna_dna_fragments.py -> build/lib/mmtbx/conformation_dependent_library copying mmtbx/conformation_dependent_library/utils.py -> build/lib/mmtbx/conformation_dependent_library creating build/lib/mmtbx/hydrogens copying mmtbx/hydrogens/tst_add_hydrogen_8.py -> build/lib/mmtbx/hydrogens copying mmtbx/hydrogens/specialised_hydrogen_atoms.py -> build/lib/mmtbx/hydrogens copying mmtbx/hydrogens/validate_H.py -> build/lib/mmtbx/hydrogens copying mmtbx/hydrogens/riding.py -> build/lib/mmtbx/hydrogens copying mmtbx/hydrogens/tst_parameterization_2.py -> build/lib/mmtbx/hydrogens copying mmtbx/hydrogens/connectivity.py -> build/lib/mmtbx/hydrogens copying mmtbx/hydrogens/build_hydrogens.py -> build/lib/mmtbx/hydrogens copying mmtbx/hydrogens/tst_riding_fd_5.py -> build/lib/mmtbx/hydrogens copying mmtbx/hydrogens/tst_riding_fd_2.py -> build/lib/mmtbx/hydrogens copying mmtbx/hydrogens/tst_riding_fd_3.py -> build/lib/mmtbx/hydrogens copying mmtbx/hydrogens/tst_add_hydrogen_time.py -> build/lib/mmtbx/hydrogens copying mmtbx/hydrogens/tst_parameterization_7.py -> build/lib/mmtbx/hydrogens copying mmtbx/hydrogens/tst_add_hydrogen_7.py -> build/lib/mmtbx/hydrogens copying mmtbx/hydrogens/parameterization.py -> build/lib/mmtbx/hydrogens copying mmtbx/hydrogens/tst_parameterization_6.py -> build/lib/mmtbx/hydrogens copying mmtbx/hydrogens/tst_validate_H.py -> build/lib/mmtbx/hydrogens copying mmtbx/hydrogens/tst_add_hydrogen_9.py -> build/lib/mmtbx/hydrogens copying mmtbx/hydrogens/tst_parameterization_4.py -> build/lib/mmtbx/hydrogens copying mmtbx/hydrogens/tst_parameterization_9.py -> build/lib/mmtbx/hydrogens copying mmtbx/hydrogens/tst_riding_fd_4.py -> build/lib/mmtbx/hydrogens copying mmtbx/hydrogens/tst_parameterization_8.py -> build/lib/mmtbx/hydrogens copying mmtbx/hydrogens/tst_add_hydrogen_1.py -> build/lib/mmtbx/hydrogens copying mmtbx/hydrogens/tst_add_hydrogen.py -> build/lib/mmtbx/hydrogens copying mmtbx/hydrogens/tst_parameterization_3.py -> build/lib/mmtbx/hydrogens copying mmtbx/hydrogens/tst_riding_manager.py -> build/lib/mmtbx/hydrogens copying mmtbx/hydrogens/reduce_hydrogen.py -> build/lib/mmtbx/hydrogens copying mmtbx/hydrogens/tst_add_hydrogen_6.py -> build/lib/mmtbx/hydrogens copying mmtbx/hydrogens/__init__.py -> build/lib/mmtbx/hydrogens copying mmtbx/hydrogens/tst_add_hydrogen_2.py -> build/lib/mmtbx/hydrogens copying mmtbx/hydrogens/tst_riding_minimize.py -> build/lib/mmtbx/hydrogens copying mmtbx/hydrogens/neutron_utils.py -> build/lib/mmtbx/hydrogens copying mmtbx/hydrogens/tst_add_hydrogen_5.py -> build/lib/mmtbx/hydrogens copying mmtbx/hydrogens/tst.py -> build/lib/mmtbx/hydrogens copying mmtbx/hydrogens/find.py -> build/lib/mmtbx/hydrogens copying mmtbx/hydrogens/tst_connectivity.py -> build/lib/mmtbx/hydrogens copying mmtbx/hydrogens/tst_add_hydrogen_0.py -> build/lib/mmtbx/hydrogens copying mmtbx/hydrogens/tst_parameterization_1.py -> build/lib/mmtbx/hydrogens copying mmtbx/hydrogens/tst_parameterization_5.py -> build/lib/mmtbx/hydrogens copying mmtbx/hydrogens/tst_riding_coefficients.py -> build/lib/mmtbx/hydrogens copying mmtbx/hydrogens/tst_riding_fd_1.py -> build/lib/mmtbx/hydrogens copying mmtbx/hydrogens/tst_add_hydrogen_3.py -> build/lib/mmtbx/hydrogens copying mmtbx/hydrogens/tst_add_hydrogen_4.py -> build/lib/mmtbx/hydrogens creating build/lib/mmtbx/rsr copying mmtbx/rsr/__init__.py -> build/lib/mmtbx/rsr copying mmtbx/rsr/tst.py -> build/lib/mmtbx/rsr creating build/lib/mmtbx/building copying mmtbx/building/tst_extend_sidechains_2.py -> build/lib/mmtbx/building copying mmtbx/building/extend_sidechains.py -> build/lib/mmtbx/building copying mmtbx/building/tst_extend_sidechains.py -> build/lib/mmtbx/building copying mmtbx/building/minimize_chain.py -> build/lib/mmtbx/building copying mmtbx/building/loop_idealization.py -> build/lib/mmtbx/building copying mmtbx/building/__init__.py -> build/lib/mmtbx/building copying mmtbx/building/merge_models.py -> build/lib/mmtbx/building copying mmtbx/building/cablam_idealization.py -> build/lib/mmtbx/building creating build/lib/mmtbx/ringer copying mmtbx/ringer/em_rscc.py -> build/lib/mmtbx/ringer copying mmtbx/ringer/tst_em_rscc.py -> build/lib/mmtbx/ringer copying mmtbx/ringer/em_rolling.py -> build/lib/mmtbx/ringer copying mmtbx/ringer/__init__.py -> build/lib/mmtbx/ringer copying mmtbx/ringer/em_scoring.py -> build/lib/mmtbx/ringer copying mmtbx/ringer/tst_emringer.py -> build/lib/mmtbx/ringer copying mmtbx/ringer/emringer.py -> build/lib/mmtbx/ringer creating build/lib/mmtbx/alignment copying mmtbx/alignment/__init__.py -> build/lib/mmtbx/alignment creating build/lib/mmtbx/dynamics copying mmtbx/dynamics/ensemble_cd.py -> build/lib/mmtbx/dynamics copying mmtbx/dynamics/tst_sa.py -> build/lib/mmtbx/dynamics copying mmtbx/dynamics/simulated_annealing.py -> build/lib/mmtbx/dynamics copying mmtbx/dynamics/cartesian_dynamics.py -> build/lib/mmtbx/dynamics copying mmtbx/dynamics/__init__.py -> build/lib/mmtbx/dynamics copying mmtbx/dynamics/constants.py -> build/lib/mmtbx/dynamics copying mmtbx/dynamics/tst_cartesian_dynamics.py -> build/lib/mmtbx/dynamics creating build/lib/mmtbx/ias copying mmtbx/ias/tst_ias.py -> build/lib/mmtbx/ias copying mmtbx/ias/__init__.py -> build/lib/mmtbx/ias creating build/lib/mmtbx/bulk_solvent copying mmtbx/bulk_solvent/kbu_refinery.py -> build/lib/mmtbx/bulk_solvent copying mmtbx/bulk_solvent/tst_bulk_solvent_and_scaling.py -> build/lib/mmtbx/bulk_solvent copying mmtbx/bulk_solvent/scaler.py -> build/lib/mmtbx/bulk_solvent copying mmtbx/bulk_solvent/tst_kb_sol_u_star_fd.py -> build/lib/mmtbx/bulk_solvent copying mmtbx/bulk_solvent/tst_mosaic.py -> build/lib/mmtbx/bulk_solvent copying mmtbx/bulk_solvent/multi_mask_bulk_solvent.py -> build/lib/mmtbx/bulk_solvent copying mmtbx/bulk_solvent/f_model_all_scales.py -> build/lib/mmtbx/bulk_solvent copying mmtbx/bulk_solvent/example.py -> build/lib/mmtbx/bulk_solvent copying mmtbx/bulk_solvent/tst_fit_kexpb_to_ktotal.py -> build/lib/mmtbx/bulk_solvent copying mmtbx/bulk_solvent/__init__.py -> build/lib/mmtbx/bulk_solvent copying mmtbx/bulk_solvent/tst_flat_nonuniform.py -> build/lib/mmtbx/bulk_solvent copying mmtbx/bulk_solvent/example2.py -> build/lib/mmtbx/bulk_solvent copying mmtbx/bulk_solvent/tst_scaler.py -> build/lib/mmtbx/bulk_solvent copying mmtbx/bulk_solvent/tst_aniso_scaler.py -> build/lib/mmtbx/bulk_solvent copying mmtbx/bulk_solvent/mosaic.py -> build/lib/mmtbx/bulk_solvent copying mmtbx/bulk_solvent/bulk_solvent_and_scaling.py -> build/lib/mmtbx/bulk_solvent creating build/lib/mmtbx/max_lik copying mmtbx/max_lik/tst_max_lik.py -> build/lib/mmtbx/max_lik copying mmtbx/max_lik/tst_maxlik.py -> build/lib/mmtbx/max_lik copying mmtbx/max_lik/max_like_non_uniform.py -> build/lib/mmtbx/max_lik copying mmtbx/max_lik/maxlik.py -> build/lib/mmtbx/max_lik copying mmtbx/max_lik/__init__.py -> build/lib/mmtbx/max_lik creating build/lib/mmtbx/ncs copying mmtbx/ncs/ligands.py -> build/lib/mmtbx/ncs copying mmtbx/ncs/cartesian_restraints.py -> build/lib/mmtbx/ncs copying mmtbx/ncs/tncs.py -> build/lib/mmtbx/ncs copying mmtbx/ncs/ncs_params.py -> build/lib/mmtbx/ncs copying mmtbx/ncs/ncs_search.py -> build/lib/mmtbx/ncs copying mmtbx/ncs/ncs.py -> build/lib/mmtbx/ncs copying mmtbx/ncs/ncs_utils.py -> build/lib/mmtbx/ncs copying mmtbx/ncs/ncs_restraints_group_list.py -> build/lib/mmtbx/ncs copying mmtbx/ncs/__init__.py -> build/lib/mmtbx/ncs creating build/lib/mmtbx/programs copying mmtbx/programs/rna_validate_bonds.py -> build/lib/mmtbx/programs copying mmtbx/programs/fmodel.py -> build/lib/mmtbx/programs copying mmtbx/programs/rotalyze.py -> build/lib/mmtbx/programs copying mmtbx/programs/pdbtools.py -> build/lib/mmtbx/programs copying mmtbx/programs/barbed_wire_analysis.py -> build/lib/mmtbx/programs copying mmtbx/programs/arginine_geometry.py -> build/lib/mmtbx/programs copying mmtbx/programs/rama_z.py -> build/lib/mmtbx/programs copying mmtbx/programs/suitename.py -> build/lib/mmtbx/programs copying mmtbx/programs/polder.py -> build/lib/mmtbx/programs copying mmtbx/programs/model_vs_sequence.py -> build/lib/mmtbx/programs copying mmtbx/programs/reduce_cryoem_resolution.py -> build/lib/mmtbx/programs copying mmtbx/programs/comparama.py -> build/lib/mmtbx/programs copying mmtbx/programs/mask.py -> build/lib/mmtbx/programs copying mmtbx/programs/pdb_as_cif.py -> build/lib/mmtbx/programs copying mmtbx/programs/hbond.py -> build/lib/mmtbx/programs copying mmtbx/programs/chiral_validation.py -> build/lib/mmtbx/programs copying mmtbx/programs/cbetadev.py -> build/lib/mmtbx/programs copying mmtbx/programs/xtrapol8.py -> build/lib/mmtbx/programs copying mmtbx/programs/taam_minus_iam.py -> build/lib/mmtbx/programs copying mmtbx/programs/cablam.py -> build/lib/mmtbx/programs copying mmtbx/programs/undowser2.py -> build/lib/mmtbx/programs copying mmtbx/programs/mp_validate_bonds.py -> build/lib/mmtbx/programs copying mmtbx/programs/atom_valence_simple.py -> build/lib/mmtbx/programs copying mmtbx/programs/ss_validation.py -> build/lib/mmtbx/programs copying mmtbx/programs/ligand_restraints_validation.py -> build/lib/mmtbx/programs copying mmtbx/programs/clashscore.py -> build/lib/mmtbx/programs copying mmtbx/programs/suitename_old.py -> build/lib/mmtbx/programs copying mmtbx/programs/ramalyze.py -> build/lib/mmtbx/programs copying mmtbx/programs/water_b_factors.py -> build/lib/mmtbx/programs copying mmtbx/programs/debug_riding.py -> build/lib/mmtbx/programs copying mmtbx/programs/holton_geometry_validation.py -> build/lib/mmtbx/programs copying mmtbx/programs/elbow_services.py -> build/lib/mmtbx/programs copying mmtbx/programs/next_gen_atom_typing.py -> build/lib/mmtbx/programs copying mmtbx/programs/ss_idealization.py -> build/lib/mmtbx/programs copying mmtbx/programs/process_predicted_model.py -> build/lib/mmtbx/programs copying mmtbx/programs/probe2.py -> build/lib/mmtbx/programs copying mmtbx/programs/ribbons.py -> build/lib/mmtbx/programs copying mmtbx/programs/atom_selection.py -> build/lib/mmtbx/programs copying mmtbx/programs/reduce2.py -> build/lib/mmtbx/programs copying mmtbx/programs/undowser.py -> build/lib/mmtbx/programs copying mmtbx/programs/rna_validate_suites.py -> build/lib/mmtbx/programs copying mmtbx/programs/hydrogenate.py -> build/lib/mmtbx/programs copying mmtbx/programs/probescore_ligand.py -> build/lib/mmtbx/programs copying mmtbx/programs/quantum_interface.py -> build/lib/mmtbx/programs copying mmtbx/programs/__init__.py -> build/lib/mmtbx/programs copying mmtbx/programs/matthews.py -> build/lib/mmtbx/programs copying mmtbx/programs/real_space_correlation.py -> build/lib/mmtbx/programs copying mmtbx/programs/cablam_idealization.py -> build/lib/mmtbx/programs copying mmtbx/programs/rna_validate_puckers.py -> build/lib/mmtbx/programs copying mmtbx/programs/clashscore2.py -> build/lib/mmtbx/programs copying mmtbx/programs/validate_ligands.py -> build/lib/mmtbx/programs copying mmtbx/programs/fetch.py -> build/lib/mmtbx/programs copying mmtbx/programs/rna_validate.py -> build/lib/mmtbx/programs copying mmtbx/programs/prepare_pdb_deposition.py -> build/lib/mmtbx/programs copying mmtbx/programs/nonbonded_overlaps.py -> build/lib/mmtbx/programs copying mmtbx/programs/emringer.py -> build/lib/mmtbx/programs copying mmtbx/programs/omegalyze.py -> build/lib/mmtbx/programs creating build/lib/mmtbx/real_space copying mmtbx/real_space/__init__.py -> build/lib/mmtbx/real_space copying mmtbx/real_space/tst.py -> build/lib/mmtbx/real_space creating build/lib/mmtbx/suitename copying mmtbx/suitename/suitealyze.py -> build/lib/mmtbx/suitename copying mmtbx/suitename/suitename.py -> build/lib/mmtbx/suitename copying mmtbx/suitename/suiteninput.py -> build/lib/mmtbx/suitename copying mmtbx/suitename/diangle.py -> build/lib/mmtbx/suitename copying mmtbx/suitename/suitenamedefs.py -> build/lib/mmtbx/suitename copying mmtbx/suitename/dualparse.py -> build/lib/mmtbx/suitename copying mmtbx/suitename/mainchain.py -> build/lib/mmtbx/suitename copying mmtbx/suitename/transdent.py -> build/lib/mmtbx/suitename copying mmtbx/suitename/__init__.py -> build/lib/mmtbx/suitename copying mmtbx/suitename/suites.py -> build/lib/mmtbx/suitename copying mmtbx/suitename/suitenout.py -> build/lib/mmtbx/suitename copying mmtbx/suitename/suiteninit.py -> build/lib/mmtbx/suitename creating build/lib/mmtbx/validation copying mmtbx/validation/cbd_utils.py -> build/lib/mmtbx/validation copying mmtbx/validation/ligands.py -> build/lib/mmtbx/validation copying mmtbx/validation/rotalyze.py -> build/lib/mmtbx/validation copying mmtbx/validation/barbed_wire_analysis.py -> build/lib/mmtbx/validation copying mmtbx/validation/comprehensive_residue.py -> build/lib/mmtbx/validation copying mmtbx/validation/rama_z.py -> build/lib/mmtbx/validation copying mmtbx/validation/fav_lists.py -> build/lib/mmtbx/validation copying mmtbx/validation/comparama.py -> build/lib/mmtbx/validation copying mmtbx/validation/cbetadev.py -> build/lib/mmtbx/validation copying mmtbx/validation/mean_devs_PRO_phi_psi.py -> build/lib/mmtbx/validation copying mmtbx/validation/cablam.py -> build/lib/mmtbx/validation copying mmtbx/validation/undowser2.py -> build/lib/mmtbx/validation copying mmtbx/validation/datasets.py -> build/lib/mmtbx/validation copying mmtbx/validation/mp_validate_bonds.py -> build/lib/mmtbx/validation copying mmtbx/validation/mean_devs_others_phi_psi.py -> build/lib/mmtbx/validation copying mmtbx/validation/clashscore.py -> build/lib/mmtbx/validation copying mmtbx/validation/ramalyze.py -> build/lib/mmtbx/validation copying mmtbx/validation/mean_devs_VAL_THR_ILE_phi_psi.py -> build/lib/mmtbx/validation copying mmtbx/validation/holton_geometry_validation.py -> build/lib/mmtbx/validation copying mmtbx/validation/sequence.py -> build/lib/mmtbx/validation copying mmtbx/validation/analyze_peptides.py -> build/lib/mmtbx/validation copying mmtbx/validation/undowser.py -> build/lib/mmtbx/validation copying mmtbx/validation/__init__.py -> build/lib/mmtbx/validation copying mmtbx/validation/experimental.py -> build/lib/mmtbx/validation copying mmtbx/validation/waters.py -> build/lib/mmtbx/validation copying mmtbx/validation/model_properties.py -> build/lib/mmtbx/validation copying mmtbx/validation/ensembles.py -> build/lib/mmtbx/validation copying mmtbx/validation/clashscore2.py -> build/lib/mmtbx/validation copying mmtbx/validation/phi_psi_2_data.py -> build/lib/mmtbx/validation copying mmtbx/validation/graphics.py -> build/lib/mmtbx/validation copying mmtbx/validation/chain_comparison.py -> build/lib/mmtbx/validation copying mmtbx/validation/validate_ligands.py -> build/lib/mmtbx/validation copying mmtbx/validation/rna_validate.py -> build/lib/mmtbx/validation copying mmtbx/validation/convert_lists.py -> build/lib/mmtbx/validation copying mmtbx/validation/utils.py -> build/lib/mmtbx/validation copying mmtbx/validation/restraints.py -> build/lib/mmtbx/validation copying mmtbx/validation/omegalyze.py -> build/lib/mmtbx/validation creating build/lib/mmtbx/secondary_structure/build copying mmtbx/secondary_structure/build/tst_1.py -> build/lib/mmtbx/secondary_structure/build copying mmtbx/secondary_structure/build/tst_ss_id_ncs.py -> build/lib/mmtbx/secondary_structure/build copying mmtbx/secondary_structure/build/tst_2.py -> build/lib/mmtbx/secondary_structure/build copying mmtbx/secondary_structure/build/ss_idealization.py -> build/lib/mmtbx/secondary_structure/build copying mmtbx/secondary_structure/build/tst_3.py -> build/lib/mmtbx/secondary_structure/build copying mmtbx/secondary_structure/build/tst_io.py -> build/lib/mmtbx/secondary_structure/build copying mmtbx/secondary_structure/build/__init__.py -> build/lib/mmtbx/secondary_structure/build creating build/lib/mmtbx/sisa/optimize copying mmtbx/sisa/optimize/mod_masks.py -> build/lib/mmtbx/sisa/optimize copying mmtbx/sisa/optimize/mod_ga.py -> build/lib/mmtbx/sisa/optimize copying mmtbx/sisa/optimize/mod_input.py -> build/lib/mmtbx/sisa/optimize copying mmtbx/sisa/optimize/mod_util.py -> build/lib/mmtbx/sisa/optimize copying mmtbx/sisa/optimize/mod_mtz.py -> build/lib/mmtbx/sisa/optimize copying mmtbx/sisa/optimize/__init__.py -> build/lib/mmtbx/sisa/optimize copying mmtbx/sisa/optimize/mod_optimize.py -> build/lib/mmtbx/sisa/optimize creating build/lib/mmtbx/ions/svm copying mmtbx/ions/svm/dump_sites.py -> build/lib/mmtbx/ions/svm copying mmtbx/ions/svm/tst_classifier_01.py -> build/lib/mmtbx/ions/svm copying mmtbx/ions/svm/__init__.py -> build/lib/mmtbx/ions/svm copying mmtbx/ions/svm/tst_classifier_02.py -> build/lib/mmtbx/ions/svm copying mmtbx/ions/svm/utils.py -> build/lib/mmtbx/ions/svm creating build/lib/mmtbx/regression/tls copying mmtbx/regression/tls/tst_u_tls_vs_u_ens_01.py -> build/lib/mmtbx/regression/tls copying mmtbx/regression/tls/tst_u_tls_vs_u_ens_00.py -> build/lib/mmtbx/regression/tls copying mmtbx/regression/tls/tst_tls_as_xyz.py -> build/lib/mmtbx/regression/tls copying mmtbx/regression/tls/tst_u_tls_vs_u_ens_03.py -> build/lib/mmtbx/regression/tls copying mmtbx/regression/tls/tst_tls_utils.py -> build/lib/mmtbx/regression/tls copying mmtbx/regression/tls/tst_u_tls_vs_u_ens_04.py -> build/lib/mmtbx/regression/tls copying mmtbx/regression/tls/tst_u_tls_vs_u_ens_02.py -> build/lib/mmtbx/regression/tls copying mmtbx/regression/tls/tst_get_t_scheme.py -> build/lib/mmtbx/regression/tls copying mmtbx/regression/tls/tst_tls_analysis.py -> build/lib/mmtbx/regression/tls copying mmtbx/regression/tls/__init__.py -> build/lib/mmtbx/regression/tls copying mmtbx/regression/tls/tst_tls_refinement_fft.py -> build/lib/mmtbx/regression/tls copying mmtbx/regression/tls/tst_formula_t_S_10_vs_11_4muy.py -> build/lib/mmtbx/regression/tls copying mmtbx/regression/tls/tst_tls.py -> build/lib/mmtbx/regression/tls copying mmtbx/regression/tls/tst_formula_t_S_10_vs_11_2igd.py -> build/lib/mmtbx/regression/tls copying mmtbx/regression/tls/tst_tls_optimise_amplitudes.py -> build/lib/mmtbx/regression/tls creating build/lib/mmtbx/regression/model copying mmtbx/regression/model/tst_restrain_selection_to_self_or_neighbors.py -> build/lib/mmtbx/regression/model copying mmtbx/regression/model/tst_model_utils_merge_models.py -> build/lib/mmtbx/regression/model copying mmtbx/regression/model/tst_model_2.py -> build/lib/mmtbx/regression/model copying mmtbx/regression/model/tst_model_merge.py -> build/lib/mmtbx/regression/model copying mmtbx/regression/model/tst_model_remove_alternative_conformations.py -> build/lib/mmtbx/regression/model copying mmtbx/regression/model/tst_model_dedeuterate.py -> build/lib/mmtbx/regression/model copying mmtbx/regression/model/tst_model_cart_ref_restraints.py -> build/lib/mmtbx/regression/model copying mmtbx/regression/model/tst_model_neutralize_scatterers.py -> build/lib/mmtbx/regression/model copying mmtbx/regression/model/tst_model_biomt_mtrix.py -> build/lib/mmtbx/regression/model copying mmtbx/regression/model/tst_model_biomt_mtrix_2.py -> build/lib/mmtbx/regression/model copying mmtbx/regression/model/tst_model_ramachandran.py -> build/lib/mmtbx/regression/model copying mmtbx/regression/model/tst_model.py -> build/lib/mmtbx/regression/model copying mmtbx/regression/model/tst_model_symmetry.py -> build/lib/mmtbx/regression/model copying mmtbx/regression/model/tst_model_pairs_within.py -> build/lib/mmtbx/regression/model copying mmtbx/regression/model/tst_model_mtrix.py -> build/lib/mmtbx/regression/model copying mmtbx/regression/model/__init__.py -> build/lib/mmtbx/regression/model copying mmtbx/regression/model/tst_model_get_vdw_radii.py -> build/lib/mmtbx/regression/model copying mmtbx/regression/model/tst_model_set_hydrogen_bond_length.py -> build/lib/mmtbx/regression/model copying mmtbx/regression/model/tst_model_ncs.py -> build/lib/mmtbx/regression/model copying mmtbx/regression/model/tst_model_tors_ref_restraints.py -> build/lib/mmtbx/regression/model creating build/lib/mmtbx/regression/ncs copying mmtbx/regression/ncs/tst_ncs_search_flips.py -> build/lib/mmtbx/regression/ncs copying mmtbx/regression/ncs/tst_geometry_minimization_ncs_constraints.py -> build/lib/mmtbx/regression/ncs copying mmtbx/regression/ncs/tst_restraints.py -> build/lib/mmtbx/regression/ncs copying mmtbx/regression/ncs/tst_ncs_utils.py -> build/lib/mmtbx/regression/ncs copying mmtbx/regression/ncs/tst_ncs_search.py -> build/lib/mmtbx/regression/ncs copying mmtbx/regression/ncs/tst_minimization_ncs_constraints_real_space.py -> build/lib/mmtbx/regression/ncs copying mmtbx/regression/ncs/tst_minimization_ncs_constraints.py -> build/lib/mmtbx/regression/ncs copying mmtbx/regression/ncs/tst_minimization_ncs_constraints3.py -> build/lib/mmtbx/regression/ncs copying mmtbx/regression/ncs/tst_ncs_restraints_group_list.py -> build/lib/mmtbx/regression/ncs copying mmtbx/regression/ncs/__init__.py -> build/lib/mmtbx/regression/ncs copying mmtbx/regression/ncs/tst_minimization_ncs_constraints2.py -> build/lib/mmtbx/regression/ncs creating build/lib/mmtbx/geometry_restraints/torsion_restraints copying mmtbx/geometry_restraints/torsion_restraints/tst_reference_model.py -> build/lib/mmtbx/geometry_restraints/torsion_restraints copying mmtbx/geometry_restraints/torsion_restraints/rotamer_search.py -> build/lib/mmtbx/geometry_restraints/torsion_restraints copying mmtbx/geometry_restraints/torsion_restraints/__init__.py -> build/lib/mmtbx/geometry_restraints/torsion_restraints copying mmtbx/geometry_restraints/torsion_restraints/tst_reference_model_ligands.py -> build/lib/mmtbx/geometry_restraints/torsion_restraints copying mmtbx/geometry_restraints/torsion_restraints/tst_torsion_ncs.py -> build/lib/mmtbx/geometry_restraints/torsion_restraints copying mmtbx/geometry_restraints/torsion_restraints/torsion_ncs.py -> build/lib/mmtbx/geometry_restraints/torsion_restraints copying mmtbx/geometry_restraints/torsion_restraints/reference_model.py -> build/lib/mmtbx/geometry_restraints/torsion_restraints copying mmtbx/geometry_restraints/torsion_restraints/utils.py -> build/lib/mmtbx/geometry_restraints/torsion_restraints creating build/lib/mmtbx/refinement/ensemble_refinement copying mmtbx/refinement/ensemble_refinement/ensemble_utils.py -> build/lib/mmtbx/refinement/ensemble_refinement copying mmtbx/refinement/ensemble_refinement/ensemble_probability.py -> build/lib/mmtbx/refinement/ensemble_refinement copying mmtbx/refinement/ensemble_refinement/__init__.py -> build/lib/mmtbx/refinement/ensemble_refinement creating build/lib/mmtbx/refinement/real_space copying mmtbx/refinement/real_space/tst_fit_residues_1.py -> build/lib/mmtbx/refinement/real_space copying mmtbx/refinement/real_space/rigid_body.py -> build/lib/mmtbx/refinement/real_space copying mmtbx/refinement/real_space/tst_aa_residue_axes_and_clusters.py -> build/lib/mmtbx/refinement/real_space copying mmtbx/refinement/real_space/tst_fit_water.py -> build/lib/mmtbx/refinement/real_space copying mmtbx/refinement/real_space/occupancy.py -> build/lib/mmtbx/refinement/real_space copying mmtbx/refinement/real_space/explode_and_refine.py -> build/lib/mmtbx/refinement/real_space copying mmtbx/refinement/real_space/individual_sites.py -> build/lib/mmtbx/refinement/real_space copying mmtbx/refinement/real_space/tst_fit_residues_6.py -> build/lib/mmtbx/refinement/real_space copying mmtbx/refinement/real_space/fit_small_molecule.py -> build/lib/mmtbx/refinement/real_space copying mmtbx/refinement/real_space/tst_individual_sites_1.py -> build/lib/mmtbx/refinement/real_space copying mmtbx/refinement/real_space/tst_rigid_body.py -> build/lib/mmtbx/refinement/real_space copying mmtbx/refinement/real_space/tst_weight.py -> build/lib/mmtbx/refinement/real_space copying mmtbx/refinement/real_space/tst_fit_residues_selection.py -> build/lib/mmtbx/refinement/real_space copying mmtbx/refinement/real_space/tst_fit_residues_1H.py -> build/lib/mmtbx/refinement/real_space copying mmtbx/refinement/real_space/tst_fit_residue_2.py -> build/lib/mmtbx/refinement/real_space copying mmtbx/refinement/real_space/tst_fit_residues_4.py -> build/lib/mmtbx/refinement/real_space copying mmtbx/refinement/real_space/tst_fit_residue_1.py -> build/lib/mmtbx/refinement/real_space copying mmtbx/refinement/real_space/adp.py -> build/lib/mmtbx/refinement/real_space copying mmtbx/refinement/real_space/tst_fit_residue_0H.py -> build/lib/mmtbx/refinement/real_space copying mmtbx/refinement/real_space/fit_his.py -> build/lib/mmtbx/refinement/real_space copying mmtbx/refinement/real_space/tst_individual_sites_3.py -> build/lib/mmtbx/refinement/real_space copying mmtbx/refinement/real_space/fit_residues.py -> build/lib/mmtbx/refinement/real_space copying mmtbx/refinement/real_space/tst_fit_residue_0.py -> build/lib/mmtbx/refinement/real_space copying mmtbx/refinement/real_space/tst_fit_residue_3.py -> build/lib/mmtbx/refinement/real_space copying mmtbx/refinement/real_space/tst_fit_residues_5.py -> build/lib/mmtbx/refinement/real_space copying mmtbx/refinement/real_space/tst_fit_residue_5.py -> build/lib/mmtbx/refinement/real_space copying mmtbx/refinement/real_space/tst_fit_residues_3.py -> build/lib/mmtbx/refinement/real_space copying mmtbx/refinement/real_space/tst_fit_residue_7.py -> build/lib/mmtbx/refinement/real_space copying mmtbx/refinement/real_space/__init__.py -> build/lib/mmtbx/refinement/real_space copying mmtbx/refinement/real_space/tst_fit_residue_4.py -> build/lib/mmtbx/refinement/real_space copying mmtbx/refinement/real_space/tst_individual_sites_2.py -> build/lib/mmtbx/refinement/real_space copying mmtbx/refinement/real_space/fit_water.py -> build/lib/mmtbx/refinement/real_space copying mmtbx/refinement/real_space/tst_fit_residue_1H.py -> build/lib/mmtbx/refinement/real_space copying mmtbx/refinement/real_space/tst_fit_residue_6.py -> build/lib/mmtbx/refinement/real_space copying mmtbx/refinement/real_space/tst_monitor.py -> build/lib/mmtbx/refinement/real_space copying mmtbx/refinement/real_space/weight.py -> build/lib/mmtbx/refinement/real_space copying mmtbx/refinement/real_space/fit_residue.py -> build/lib/mmtbx/refinement/real_space copying mmtbx/refinement/real_space/tst_fit_residues_2.py -> build/lib/mmtbx/refinement/real_space copying mmtbx/refinement/real_space/utils.py -> build/lib/mmtbx/refinement/real_space copying mmtbx/refinement/real_space/tst_fit_residue_full_sampling.py -> build/lib/mmtbx/refinement/real_space creating build/lib/mmtbx/building/loop_closure copying mmtbx/building/loop_closure/ccd.py -> build/lib/mmtbx/building/loop_closure copying mmtbx/building/loop_closure/berkeley_ramalyze.py -> build/lib/mmtbx/building/loop_closure copying mmtbx/building/loop_closure/starting_conformations.py -> build/lib/mmtbx/building/loop_closure copying mmtbx/building/loop_closure/__init__.py -> build/lib/mmtbx/building/loop_closure copying mmtbx/building/loop_closure/utils.py -> build/lib/mmtbx/building/loop_closure creating build/lib/mmtbx/building/ligands copying mmtbx/building/ligands/tst_00.py -> build/lib/mmtbx/building/ligands copying mmtbx/building/ligands/lifi.py -> build/lib/mmtbx/building/ligands copying mmtbx/building/ligands/__init__.py -> build/lib/mmtbx/building/ligands creating build/lib/mmtbx/validation/ramachandran copying mmtbx/validation/ramachandran/__init__.py -> build/lib/mmtbx/validation/ramachandran copying mmtbx/validation/ramachandran/convert_from_text.py -> build/lib/mmtbx/validation/ramachandran creating build/lib/mmtbx/validation/regression copying mmtbx/validation/regression/tst_hydrogen_addition_clashscore.py -> build/lib/mmtbx/validation/regression copying mmtbx/validation/regression/tst_ramalyze2.py -> build/lib/mmtbx/validation/regression copying mmtbx/validation/regression/tst_waters.py -> build/lib/mmtbx/validation/regression copying mmtbx/validation/regression/tst_molprobity_4.py -> build/lib/mmtbx/validation/regression copying mmtbx/validation/regression/tst_clashscore_2.py -> build/lib/mmtbx/validation/regression copying mmtbx/validation/regression/tst_rama_z_02.py -> build/lib/mmtbx/validation/regression copying mmtbx/validation/regression/tst_mp_validate_bonds.py -> build/lib/mmtbx/validation/regression copying mmtbx/validation/regression/tst_molprobity_2.py -> build/lib/mmtbx/validation/regression copying mmtbx/validation/regression/tst_rna_validate.py -> build/lib/mmtbx/validation/regression copying mmtbx/validation/regression/tst_cablam.py -> build/lib/mmtbx/validation/regression copying mmtbx/validation/regression/tst_ramalyze_rare.py -> build/lib/mmtbx/validation/regression copying mmtbx/validation/regression/tst_ramalyze.py -> build/lib/mmtbx/validation/regression copying mmtbx/validation/regression/tst_restraints.py -> build/lib/mmtbx/validation/regression copying mmtbx/validation/regression/tst_molprobity_5.py -> build/lib/mmtbx/validation/regression copying mmtbx/validation/regression/tst_experimental.py -> build/lib/mmtbx/validation/regression copying mmtbx/validation/regression/tst_do_flips_clashscore.py -> build/lib/mmtbx/validation/regression copying mmtbx/validation/regression/tst_molprobity_1.py -> build/lib/mmtbx/validation/regression copying mmtbx/validation/regression/tst_model_properties.py -> build/lib/mmtbx/validation/regression copying mmtbx/validation/regression/tst_find_region_max_value.py -> build/lib/mmtbx/validation/regression copying mmtbx/validation/regression/tst_mp_geo_endtoend.py -> build/lib/mmtbx/validation/regression copying mmtbx/validation/regression/tst_omegalyze.py -> build/lib/mmtbx/validation/regression copying mmtbx/validation/regression/tst_cablam_2.py -> build/lib/mmtbx/validation/regression copying mmtbx/validation/regression/tst_rotalyze.py -> build/lib/mmtbx/validation/regression copying mmtbx/validation/regression/tst_cbetadev_02.py -> build/lib/mmtbx/validation/regression copying mmtbx/validation/regression/tst_molprobity_arguments.py -> build/lib/mmtbx/validation/regression copying mmtbx/validation/regression/tst_suitename.py -> build/lib/mmtbx/validation/regression copying mmtbx/validation/regression/tst_mp_geo_chiral_volume_cases.py -> build/lib/mmtbx/validation/regression copying mmtbx/validation/regression/tst_symmetry_SS.py -> build/lib/mmtbx/validation/regression copying mmtbx/validation/regression/__init__.py -> build/lib/mmtbx/validation/regression copying mmtbx/validation/regression/tst_mp_geo.py -> build/lib/mmtbx/validation/regression copying mmtbx/validation/regression/tst_undowser2.py -> build/lib/mmtbx/validation/regression copying mmtbx/validation/regression/tst_molprobity_3.py -> build/lib/mmtbx/validation/regression copying mmtbx/validation/regression/tst_clashscore.py -> build/lib/mmtbx/validation/regression copying mmtbx/validation/regression/tst_rama_z_01.py -> build/lib/mmtbx/validation/regression copying mmtbx/validation/regression/tst_undowser.py -> build/lib/mmtbx/validation/regression copying mmtbx/validation/regression/tst_keep_hydrogens.py -> build/lib/mmtbx/validation/regression copying mmtbx/validation/regression/tst_cbetadev.py -> build/lib/mmtbx/validation/regression copying mmtbx/validation/regression/run_restraints.py -> build/lib/mmtbx/validation/regression copying mmtbx/validation/regression/tst_chiral_validation.py -> build/lib/mmtbx/validation/regression creating build/lib/mmtbx/validation/molprobity copying mmtbx/validation/molprobity/percentile_clashscore.py -> build/lib/mmtbx/validation/molprobity copying mmtbx/validation/molprobity/kinemage_templates.py -> build/lib/mmtbx/validation/molprobity copying mmtbx/validation/molprobity/probescore_ligand.py -> build/lib/mmtbx/validation/molprobity copying mmtbx/validation/molprobity/__init__.py -> build/lib/mmtbx/validation/molprobity copying mmtbx/validation/molprobity/percentile_mpscore.py -> build/lib/mmtbx/validation/molprobity copying mmtbx/validation/molprobity/mp_geo.py -> build/lib/mmtbx/validation/molprobity copying mmtbx/validation/molprobity/table_from_json.py -> build/lib/mmtbx/validation/molprobity creating build/lib/fable/command_line copying fable/command_line/show_calls.py -> build/lib/fable/command_line copying fable/command_line/split.py -> build/lib/fable/command_line copying fable/command_line/cout.py -> build/lib/fable/command_line copying fable/command_line/read.py -> build/lib/fable/command_line copying fable/command_line/insert_write_at_start_of_each_procedure.py -> build/lib/fable/command_line copying fable/command_line/fem_include_search_paths.py -> build/lib/fable/command_line copying fable/command_line/__init__.py -> build/lib/fable/command_line creating build/lib/rstbx/command_line copying rstbx/command_line/simage.solver.py -> build/lib/rstbx/command_line copying rstbx/command_line/simage.explore_completeness.py -> build/lib/rstbx/command_line copying rstbx/command_line/viewer.py -> build/lib/rstbx/command_line copying rstbx/command_line/slip_viewer.py -> build/lib/rstbx/command_line copying rstbx/command_line/simage.create.py -> build/lib/rstbx/command_line copying rstbx/command_line/simage.wx_display.py -> build/lib/rstbx/command_line copying rstbx/command_line/__init__.py -> build/lib/rstbx/command_line copying rstbx/command_line/index.py -> build/lib/rstbx/command_line copying rstbx/command_line/example_viewer.py -> build/lib/rstbx/command_line creating build/lib/rstbx/symmetry copying rstbx/symmetry/subgroup.py -> build/lib/rstbx/symmetry copying rstbx/symmetry/__init__.py -> build/lib/rstbx/symmetry copying rstbx/symmetry/sgtbx_adaptor.py -> build/lib/rstbx/symmetry creating build/lib/rstbx/dps_core copying rstbx/dps_core/tst_iotbx_converter.py -> build/lib/rstbx/dps_core copying rstbx/dps_core/cell_assessment.py -> build/lib/rstbx/dps_core copying rstbx/dps_core/constrainment.py -> build/lib/rstbx/dps_core copying rstbx/dps_core/basis_choice.py -> build/lib/rstbx/dps_core copying rstbx/dps_core/lepage.py -> build/lib/rstbx/dps_core copying rstbx/dps_core/__init__.py -> build/lib/rstbx/dps_core copying rstbx/dps_core/sampling.py -> build/lib/rstbx/dps_core copying rstbx/dps_core/zuoreduction.py -> build/lib/rstbx/dps_core creating build/lib/rstbx/bandpass copying rstbx/bandpass/simulated_annealing.py -> build/lib/rstbx/bandpass copying rstbx/bandpass/__init__.py -> build/lib/rstbx/bandpass creating build/lib/rstbx/bpcx copying rstbx/bpcx/uc1_2.py -> build/lib/rstbx/bpcx copying rstbx/bpcx/uc1_2a.py -> build/lib/rstbx/bpcx copying rstbx/bpcx/uc1_2_positions.py -> build/lib/rstbx/bpcx copying rstbx/bpcx/ersatz_misset.py -> build/lib/rstbx/bpcx copying rstbx/bpcx/uc1_2_positions_idx.py -> build/lib/rstbx/bpcx copying rstbx/bpcx/compare_mosflm_xds.py -> build/lib/rstbx/bpcx copying rstbx/bpcx/uc1_2_validate.py -> build/lib/rstbx/bpcx copying rstbx/bpcx/__init__.py -> build/lib/rstbx/bpcx creating build/lib/rstbx/outlier_spots copying rstbx/outlier_spots/fit_distribution.py -> build/lib/rstbx/outlier_spots copying rstbx/outlier_spots/__init__.py -> build/lib/rstbx/outlier_spots creating build/lib/rstbx/new_horizons copying rstbx/new_horizons/spot_shape.py -> build/lib/rstbx/new_horizons copying rstbx/new_horizons/speckfinder.py -> build/lib/rstbx/new_horizons copying rstbx/new_horizons/pixel_spread.py -> build/lib/rstbx/new_horizons copying rstbx/new_horizons/stats_index.py -> build/lib/rstbx/new_horizons copying rstbx/new_horizons/__init__.py -> build/lib/rstbx/new_horizons copying rstbx/new_horizons/oscillation_shots.py -> build/lib/rstbx/new_horizons copying rstbx/new_horizons/index.py -> build/lib/rstbx/new_horizons creating build/lib/rstbx/simulation copying rstbx/simulation/sim_utils.py -> build/lib/rstbx/simulation copying rstbx/simulation/tst_xfel1_simple.py -> build/lib/rstbx/simulation copying rstbx/simulation/sim_pdf.py -> build/lib/rstbx/simulation copying rstbx/simulation/__init__.py -> build/lib/rstbx/simulation copying rstbx/simulation/constants.py -> build/lib/rstbx/simulation creating build/lib/rstbx/diffraction copying rstbx/diffraction/tst_predict.py -> build/lib/rstbx/diffraction copying rstbx/diffraction/tst_partial_derivatives.py -> build/lib/rstbx/diffraction copying rstbx/diffraction/tst_ewald_sphere.py -> build/lib/rstbx/diffraction copying rstbx/diffraction/__init__.py -> build/lib/rstbx/diffraction creating build/lib/rstbx/dials_core copying rstbx/dials_core/integration_core.py -> build/lib/rstbx/dials_core copying rstbx/dials_core/__init__.py -> build/lib/rstbx/dials_core creating build/lib/rstbx/array_family copying rstbx/array_family/flex.py -> build/lib/rstbx/array_family copying rstbx/array_family/__init__.py -> build/lib/rstbx/array_family creating build/lib/rstbx/phil copying rstbx/phil/scope.py -> build/lib/rstbx/phil copying rstbx/phil/__init__.py -> build/lib/rstbx/phil copying rstbx/phil/preferences.py -> build/lib/rstbx/phil copying rstbx/phil/phil_preferences.py -> build/lib/rstbx/phil creating build/lib/rstbx/apps copying rstbx/apps/spot_markup.py -> build/lib/rstbx/apps copying rstbx/apps/dual_resolution_helpers.py -> build/lib/rstbx/apps copying rstbx/apps/slip_helpers.py -> build/lib/rstbx/apps copying rstbx/apps/__init__.py -> build/lib/rstbx/apps creating build/lib/rstbx/cftbx copying rstbx/cftbx/tst_coordinate_frame_converter.py -> build/lib/rstbx/cftbx copying rstbx/cftbx/coordinate_frame_converter.py -> build/lib/rstbx/cftbx copying rstbx/cftbx/coordinate_frame_helpers.py -> build/lib/rstbx/cftbx copying rstbx/cftbx/__init__.py -> build/lib/rstbx/cftbx creating build/lib/rstbx/simage copying rstbx/simage/run_labelit_index.py -> build/lib/rstbx/simage copying rstbx/simage/refine_uc_cr.py -> build/lib/rstbx/simage copying rstbx/simage/explore_completeness.py -> build/lib/rstbx/simage copying rstbx/simage/run_spotfinder.py -> build/lib/rstbx/simage copying rstbx/simage/integrate_crude.py -> build/lib/rstbx/simage copying rstbx/simage/create.py -> build/lib/rstbx/simage copying rstbx/simage/__init__.py -> build/lib/rstbx/simage copying rstbx/simage/solver.py -> build/lib/rstbx/simage copying rstbx/simage/tst.py -> build/lib/rstbx/simage copying rstbx/simage/wx_display.py -> build/lib/rstbx/simage creating build/lib/rstbx/viewer copying rstbx/viewer/pixels3d.py -> build/lib/rstbx/viewer copying rstbx/viewer/integration.py -> build/lib/rstbx/viewer copying rstbx/viewer/controls.py -> build/lib/rstbx/viewer copying rstbx/viewer/spotfinder_wrap.py -> build/lib/rstbx/viewer copying rstbx/viewer/calibration_frame.py -> build/lib/rstbx/viewer copying rstbx/viewer/calibration.py -> build/lib/rstbx/viewer copying rstbx/viewer/processing.py -> build/lib/rstbx/viewer copying rstbx/viewer/display.py -> build/lib/rstbx/viewer copying rstbx/viewer/results_base.py -> build/lib/rstbx/viewer copying rstbx/viewer/indexing.py -> build/lib/rstbx/viewer copying rstbx/viewer/__init__.py -> build/lib/rstbx/viewer copying rstbx/viewer/drivers.py -> build/lib/rstbx/viewer copying rstbx/viewer/tst.py -> build/lib/rstbx/viewer copying rstbx/viewer/dataset.py -> build/lib/rstbx/viewer copying rstbx/viewer/frame.py -> build/lib/rstbx/viewer copying rstbx/viewer/spotfinder_frame.py -> build/lib/rstbx/viewer creating build/lib/rstbx/detectors copying rstbx/detectors/silicon.py -> build/lib/rstbx/detectors copying rstbx/detectors/__init__.py -> build/lib/rstbx/detectors creating build/lib/rstbx/sublattice_support copying rstbx/sublattice_support/tst_sublattice.py -> build/lib/rstbx/sublattice_support copying rstbx/sublattice_support/__init__.py -> build/lib/rstbx/sublattice_support copying rstbx/sublattice_support/change_basis.py -> build/lib/rstbx/sublattice_support creating build/lib/rstbx/slip_viewer copying rstbx/slip_viewer/ring_frame.py -> build/lib/rstbx/slip_viewer copying rstbx/slip_viewer/tile_generation.py -> build/lib/rstbx/slip_viewer copying rstbx/slip_viewer/uc_frame.py -> build/lib/rstbx/slip_viewer copying rstbx/slip_viewer/slip_display.py -> build/lib/rstbx/slip_viewer copying rstbx/slip_viewer/slip_viewer_image_factory.py -> build/lib/rstbx/slip_viewer copying rstbx/slip_viewer/pyslip.py -> build/lib/rstbx/slip_viewer copying rstbx/slip_viewer/calibration_frame.py -> build/lib/rstbx/slip_viewer copying rstbx/slip_viewer/__init__.py -> build/lib/rstbx/slip_viewer copying rstbx/slip_viewer/score_frame.py -> build/lib/rstbx/slip_viewer copying rstbx/slip_viewer/example_frame_plugin_hidden.py -> build/lib/rstbx/slip_viewer copying rstbx/slip_viewer/frame.py -> build/lib/rstbx/slip_viewer creating build/lib/rstbx/indexing copying rstbx/indexing/do_index.py -> build/lib/rstbx/indexing copying rstbx/indexing/__init__.py -> build/lib/rstbx/indexing copying rstbx/indexing/tst_auto_monoscan.py -> build/lib/rstbx/indexing copying rstbx/indexing/tst_dataset1.py -> build/lib/rstbx/indexing creating build/lib/rstbx/indexing_api copying rstbx/indexing_api/test_dps.py -> build/lib/rstbx/indexing_api copying rstbx/indexing_api/lattice.py -> build/lib/rstbx/indexing_api copying rstbx/indexing_api/tools.py -> build/lib/rstbx/indexing_api copying rstbx/indexing_api/force_cell.py -> build/lib/rstbx/indexing_api copying rstbx/indexing_api/basis_choice.py -> build/lib/rstbx/indexing_api copying rstbx/indexing_api/nearest_neighbor.py -> build/lib/rstbx/indexing_api copying rstbx/indexing_api/__init__.py -> build/lib/rstbx/indexing_api copying rstbx/indexing_api/sampling.py -> build/lib/rstbx/indexing_api copying rstbx/indexing_api/outlier_procedure.py -> build/lib/rstbx/indexing_api copying rstbx/indexing_api/outlier_detection.py -> build/lib/rstbx/indexing_api creating build/lib/rstbx/symmetry/constraints copying rstbx/symmetry/constraints/g_gradients.py -> build/lib/rstbx/symmetry/constraints copying rstbx/symmetry/constraints/__init__.py -> build/lib/rstbx/symmetry/constraints copying rstbx/symmetry/constraints/parameter_reduction.py -> build/lib/rstbx/symmetry/constraints creating build/lib/rstbx/bpcx/detector_model copying rstbx/bpcx/detector_model/instrument_specifics.py -> build/lib/rstbx/bpcx/detector_model copying rstbx/bpcx/detector_model/tst_detector_model.py -> build/lib/rstbx/bpcx/detector_model copying rstbx/bpcx/detector_model/__init__.py -> build/lib/rstbx/bpcx/detector_model copying rstbx/bpcx/detector_model/detector.py -> build/lib/rstbx/bpcx/detector_model creating build/lib/rstbx/diffraction/fastbragg copying rstbx/diffraction/fastbragg/tst_utils_clustering.py -> build/lib/rstbx/diffraction/fastbragg copying rstbx/diffraction/fastbragg/__init__.py -> build/lib/rstbx/diffraction/fastbragg copying rstbx/diffraction/fastbragg/tst_bragg_minimal.py -> build/lib/rstbx/diffraction/fastbragg creating build/lib/rstbx/apps/stills copying rstbx/apps/stills/stills_integration.py -> build/lib/rstbx/apps/stills copying rstbx/apps/stills/dials_refinement_preceding_integration.py -> build/lib/rstbx/apps/stills copying rstbx/apps/stills/simple_integration.py -> build/lib/rstbx/apps/stills copying rstbx/apps/stills/util.py -> build/lib/rstbx/apps/stills copying rstbx/apps/stills/__init__.py -> build/lib/rstbx/apps/stills copying rstbx/apps/stills/deltapsi_refinement_preceding_integration.py -> build/lib/rstbx/apps/stills creating build/lib/spotfinder/command_line copying spotfinder/command_line/image_viewer.py -> build/lib/spotfinder/command_line copying spotfinder/command_line/thin_client.py -> build/lib/spotfinder/command_line copying spotfinder/command_line/signal_strength.py -> build/lib/spotfinder/command_line copying spotfinder/command_line/sweep_strength.py -> build/lib/spotfinder/command_line copying spotfinder/command_line/__init__.py -> build/lib/spotfinder/command_line copying spotfinder/command_line/find_active_area.py -> build/lib/spotfinder/command_line copying spotfinder/command_line/mp_spotfinder_server_read_file.py -> build/lib/spotfinder/command_line creating build/lib/spotfinder/math_support copying spotfinder/math_support/sphere_formulae.py -> build/lib/spotfinder/math_support copying spotfinder/math_support/__init__.py -> build/lib/spotfinder/math_support creating build/lib/spotfinder/core_toolbox copying spotfinder/core_toolbox/close_spots_detail.py -> build/lib/spotfinder/core_toolbox copying spotfinder/core_toolbox/__init__.py -> build/lib/spotfinder/core_toolbox creating build/lib/spotfinder/diffraction copying spotfinder/diffraction/imagefiles.py -> build/lib/spotfinder/diffraction copying spotfinder/diffraction/__init__.py -> build/lib/spotfinder/diffraction copying spotfinder/diffraction/geometry.py -> build/lib/spotfinder/diffraction creating build/lib/spotfinder/applications copying spotfinder/applications/image_viewer.py -> build/lib/spotfinder/applications copying spotfinder/applications/signal_strength.py -> build/lib/spotfinder/applications copying spotfinder/applications/stats_distl.py -> build/lib/spotfinder/applications copying spotfinder/applications/wrappers.py -> build/lib/spotfinder/applications copying spotfinder/applications/practical_heuristics.py -> build/lib/spotfinder/applications copying spotfinder/applications/__init__.py -> build/lib/spotfinder/applications creating build/lib/spotfinder/array_family copying spotfinder/array_family/flex.py -> build/lib/spotfinder/array_family copying spotfinder/array_family/__init__.py -> build/lib/spotfinder/array_family creating build/lib/spotfinder/dxtbx_toolbox copying spotfinder/dxtbx_toolbox/practical_heuristics.py -> build/lib/spotfinder/dxtbx_toolbox copying spotfinder/dxtbx_toolbox/__init__.py -> build/lib/spotfinder/dxtbx_toolbox creating build/lib/spotfinder/servers copying spotfinder/servers/apache.py -> build/lib/spotfinder/servers copying spotfinder/servers/apache_dials.py -> build/lib/spotfinder/servers copying spotfinder/servers/apache_utils.py -> build/lib/spotfinder/servers copying spotfinder/servers/apache_bcsb.py -> build/lib/spotfinder/servers copying spotfinder/servers/thin_client.py -> build/lib/spotfinder/servers copying spotfinder/servers/spotfinder_server_read_file.py -> build/lib/spotfinder/servers copying spotfinder/servers/spotfinder_server_client_push.py -> build/lib/spotfinder/servers copying spotfinder/servers/general_client_example.py -> build/lib/spotfinder/servers copying spotfinder/servers/bcsb_client_example.py -> build/lib/spotfinder/servers copying spotfinder/servers/specific_client_example.py -> build/lib/spotfinder/servers copying spotfinder/servers/multipart_encoder.py -> build/lib/spotfinder/servers copying spotfinder/servers/pilatus_client.py -> build/lib/spotfinder/servers copying spotfinder/servers/adsc_client.py -> build/lib/spotfinder/servers copying spotfinder/servers/__init__.py -> build/lib/spotfinder/servers copying spotfinder/servers/mp_spotfinder_server_read_file.py -> build/lib/spotfinder/servers copying spotfinder/servers/mp_spotfinder_server_is_alive.py -> build/lib/spotfinder/servers creating build/lib/spotfinder/applications/xfel copying spotfinder/applications/xfel/correction_vector_plot.py -> build/lib/spotfinder/applications/xfel copying spotfinder/applications/xfel/cxi_phil.py -> build/lib/spotfinder/applications/xfel copying spotfinder/applications/xfel/__init__.py -> build/lib/spotfinder/applications/xfel copying spotfinder/applications/xfel/cxi_run3.py -> build/lib/spotfinder/applications/xfel creating build/lib/spotfinder/applications/heuristic_tbx copying spotfinder/applications/heuristic_tbx/__init__.py -> build/lib/spotfinder/applications/heuristic_tbx copying spotfinder/applications/heuristic_tbx/ice_nztt.py -> build/lib/spotfinder/applications/heuristic_tbx copying spotfinder/applications/heuristic_tbx/spotreporter.py -> build/lib/spotfinder/applications/heuristic_tbx copying spotfinder/applications/heuristic_tbx/method2_resolution.py -> build/lib/spotfinder/applications/heuristic_tbx copying spotfinder/applications/heuristic_tbx/ice2.py -> build/lib/spotfinder/applications/heuristic_tbx creating build/lib/iotbx/command_line copying iotbx/command_line/shelx.as_xray_structure.py -> build/lib/iotbx/command_line copying iotbx/command_line/cif.as_miller_arrays.py -> build/lib/iotbx/command_line copying iotbx/command_line/pdb_remediator.py -> build/lib/iotbx/command_line copying iotbx/command_line/simple_map_coefficients.py -> build/lib/iotbx/command_line copying iotbx/command_line/split_data_cif.py -> build/lib/iotbx/command_line copying iotbx/command_line/sort_atoms.py -> build/lib/iotbx/command_line copying iotbx/command_line/french_wilson.py -> build/lib/iotbx/command_line copying iotbx/command_line/build_phil_cache.py -> build/lib/iotbx/command_line copying iotbx/command_line/phil.py -> build/lib/iotbx/command_line copying iotbx/command_line/pdb_as_cif.py -> build/lib/iotbx/command_line copying iotbx/command_line/show_distances.py -> build/lib/iotbx/command_line copying iotbx/command_line/detector_image_as_png.py -> build/lib/iotbx/command_line copying iotbx/command_line/explore_metric_symmetry.py -> build/lib/iotbx/command_line copying iotbx/command_line/pdb.superpose_centers_of_mass.py -> build/lib/iotbx/command_line copying iotbx/command_line/flip_symmetric_amino_acids.py -> build/lib/iotbx/command_line copying iotbx/command_line/unique_with_biomt.py -> build/lib/iotbx/command_line copying iotbx/command_line/r_free_flags_completion_simple.py -> build/lib/iotbx/command_line copying iotbx/command_line/pdb_cif_conversion.py -> build/lib/iotbx/command_line copying iotbx/command_line/pdb.link_as_geometry_restraints_edits.py -> build/lib/iotbx/command_line copying iotbx/command_line/reflection_file_converter.py -> build/lib/iotbx/command_line copying iotbx/command_line/blast_pdb.py -> build/lib/iotbx/command_line copying iotbx/command_line/get_pubmed_citation.py -> build/lib/iotbx/command_line copying iotbx/command_line/lattice_symmetry.py -> build/lib/iotbx/command_line copying iotbx/command_line/cns.sdb_reader.py -> build/lib/iotbx/command_line copying iotbx/command_line/cns.transfer_crystal_symmetry.py -> build/lib/iotbx/command_line copying iotbx/command_line/reflection_statistics.py -> build/lib/iotbx/command_line copying iotbx/command_line/pdb_labels_comparison.py -> build/lib/iotbx/command_line copying iotbx/command_line/pdb_as_fasta.py -> build/lib/iotbx/command_line copying iotbx/command_line/pdb_labels_diff.py -> build/lib/iotbx/command_line copying iotbx/command_line/cif.as_xray_structure.py -> build/lib/iotbx/command_line copying iotbx/command_line/reindex.py -> build/lib/iotbx/command_line copying iotbx/command_line/patterson_map.py -> build/lib/iotbx/command_line copying iotbx/command_line/cif_as_pdb.py -> build/lib/iotbx/command_line copying iotbx/command_line/pdb_get_citation.py -> build/lib/iotbx/command_line copying iotbx/command_line/r_free_flags_accumulation.py -> build/lib/iotbx/command_line copying iotbx/command_line/reflection_file_reader.py -> build/lib/iotbx/command_line copying iotbx/command_line/pdb.print_sequence.py -> build/lib/iotbx/command_line copying iotbx/command_line/dano_as_amplitudes.py -> build/lib/iotbx/command_line copying iotbx/command_line/poscar_as_xray_structure.py -> build/lib/iotbx/command_line copying iotbx/command_line/cns_as_mtz.py -> build/lib/iotbx/command_line copying iotbx/command_line/pdb_add_conformations.py -> build/lib/iotbx/command_line copying iotbx/command_line/pdb.box_around_molecule.py -> build/lib/iotbx/command_line copying iotbx/command_line/dtrek.to_cns.py -> build/lib/iotbx/command_line copying iotbx/command_line/mtz_as_cif.py -> build/lib/iotbx/command_line copying iotbx/command_line/pdb.join_fragment_files.py -> build/lib/iotbx/command_line copying iotbx/command_line/show_systematic_absences.py -> build/lib/iotbx/command_line copying iotbx/command_line/mtz.dump.py -> build/lib/iotbx/command_line copying iotbx/command_line/pdb.superpose_atoms_by_name.py -> build/lib/iotbx/command_line copying iotbx/command_line/r_free_flags_as_cns.py -> build/lib/iotbx/command_line copying iotbx/command_line/__init__.py -> build/lib/iotbx/command_line copying iotbx/command_line/mtrix_reconstruction.py -> build/lib/iotbx/command_line copying iotbx/command_line/effective_resolution.py -> build/lib/iotbx/command_line copying iotbx/command_line/reflection_file_editor.py -> build/lib/iotbx/command_line copying iotbx/command_line/pdb.b_factor_stats.py -> build/lib/iotbx/command_line copying iotbx/command_line/cif.validate.py -> build/lib/iotbx/command_line copying iotbx/command_line/pdb.as_xray_structure.py -> build/lib/iotbx/command_line copying iotbx/command_line/biomt_reconstruction.py -> build/lib/iotbx/command_line copying iotbx/command_line/cns.reflection_reader.py -> build/lib/iotbx/command_line copying iotbx/command_line/cbf_read.py -> build/lib/iotbx/command_line copying iotbx/command_line/pdb.insert_scale_records.py -> build/lib/iotbx/command_line copying iotbx/command_line/pdb_show_connectivity.py -> build/lib/iotbx/command_line copying iotbx/command_line/shelx.dump_as_python.py -> build/lib/iotbx/command_line copying iotbx/command_line/emma.py -> build/lib/iotbx/command_line copying iotbx/command_line/pdb_split_models.py -> build/lib/iotbx/command_line copying iotbx/command_line/file_reader.py -> build/lib/iotbx/command_line copying iotbx/command_line/merging_statistics.py -> build/lib/iotbx/command_line copying iotbx/command_line/export_scalepack_unmerged.py -> build/lib/iotbx/command_line copying iotbx/command_line/csv_as_mtz.py -> build/lib/iotbx/command_line copying iotbx/command_line/pdb.hierarchy.py -> build/lib/iotbx/command_line copying iotbx/command_line/crystal_symmetry_from_any.py -> build/lib/iotbx/command_line copying iotbx/command_line/xplor.map.show_summary.py -> build/lib/iotbx/command_line copying iotbx/command_line/shelx.as_cif.py -> build/lib/iotbx/command_line copying iotbx/command_line/distance_least_squares.py -> build/lib/iotbx/command_line copying iotbx/command_line/symmetry_search.py -> build/lib/iotbx/command_line creating build/lib/iotbx/examples copying iotbx/examples/pdb_hierarchy.py -> build/lib/iotbx/examples copying iotbx/examples/mtz_free_flipper.py -> build/lib/iotbx/examples copying iotbx/examples/pdb_symmetry_copies.py -> build/lib/iotbx/examples copying iotbx/examples/recalculate_phenix_refine_r_factors.py -> build/lib/iotbx/examples copying iotbx/examples/shelx_latt_sym_to_space_group_symbol.py -> build/lib/iotbx/examples copying iotbx/examples/tst_mtz_free_flipper.py -> build/lib/iotbx/examples copying iotbx/examples/libtbx_phil_examples.py -> build/lib/iotbx/examples copying iotbx/examples/direct_methods_light.py -> build/lib/iotbx/examples copying iotbx/examples/pdb_tardy_conf_sampling_simple.py -> build/lib/iotbx/examples copying iotbx/examples/pdb_to_map_simple.py -> build/lib/iotbx/examples copying iotbx/examples/pdb_shake.py -> build/lib/iotbx/examples copying iotbx/examples/pdbx_mmcif_tutorial.py -> build/lib/iotbx/examples copying iotbx/examples/pdb_split_chains.py -> build/lib/iotbx/examples copying iotbx/examples/__init__.py -> build/lib/iotbx/examples copying iotbx/examples/prepare_model_for_rsr.py -> build/lib/iotbx/examples copying iotbx/examples/mtz_convert_free_to_work.py -> build/lib/iotbx/examples creating build/lib/iotbx/shelx copying iotbx/shelx/parsers.py -> build/lib/iotbx/shelx copying iotbx/shelx/tst_writer.py -> build/lib/iotbx/shelx copying iotbx/shelx/tst_lex_parse_build.py -> build/lib/iotbx/shelx copying iotbx/shelx/lexer.py -> build/lib/iotbx/shelx copying iotbx/shelx/hklf.py -> build/lib/iotbx/shelx copying iotbx/shelx/tst_fvar_encoding.py -> build/lib/iotbx/shelx copying iotbx/shelx/tokens.py -> build/lib/iotbx/shelx copying iotbx/shelx/fvar_encoding.py -> build/lib/iotbx/shelx copying iotbx/shelx/writer.py -> build/lib/iotbx/shelx copying iotbx/shelx/tst_hklf.py -> build/lib/iotbx/shelx copying iotbx/shelx/__init__.py -> build/lib/iotbx/shelx copying iotbx/shelx/crystal_symmetry_from_ins.py -> build/lib/iotbx/shelx copying iotbx/shelx/write_ins.py -> build/lib/iotbx/shelx copying iotbx/shelx/errors.py -> build/lib/iotbx/shelx copying iotbx/shelx/fcf.py -> build/lib/iotbx/shelx creating build/lib/iotbx/dtrek copying iotbx/dtrek/reflnlist_reader.py -> build/lib/iotbx/dtrek copying iotbx/dtrek/__init__.py -> build/lib/iotbx/dtrek copying iotbx/dtrek/crystal_symmetry_from_ref.py -> build/lib/iotbx/dtrek copying iotbx/dtrek/dtrek_symmetry_dict.py -> build/lib/iotbx/dtrek creating build/lib/iotbx/fullprof copying iotbx/fullprof/read_pcr.py -> build/lib/iotbx/fullprof copying iotbx/fullprof/write_pcr.py -> build/lib/iotbx/fullprof copying iotbx/fullprof/__init__.py -> build/lib/iotbx/fullprof creating build/lib/iotbx/xds copying iotbx/xds/xparm.py -> build/lib/iotbx/xds copying iotbx/xds/xds_inp.py -> build/lib/iotbx/xds copying iotbx/xds/gain_cbf.py -> build/lib/iotbx/xds copying iotbx/xds/integrate_hkl.py -> build/lib/iotbx/xds copying iotbx/xds/spot_xds.py -> build/lib/iotbx/xds copying iotbx/xds/blank_cbf.py -> build/lib/iotbx/xds copying iotbx/xds/__init__.py -> build/lib/iotbx/xds copying iotbx/xds/geometry.py -> build/lib/iotbx/xds copying iotbx/xds/read_ascii.py -> build/lib/iotbx/xds copying iotbx/xds/correction.py -> build/lib/iotbx/xds copying iotbx/xds/xds_cbf.py -> build/lib/iotbx/xds copying iotbx/xds/crystal_symmetry_from_hkl.py -> build/lib/iotbx/xds creating build/lib/iotbx/ccp4_map copying iotbx/ccp4_map/__init__.py -> build/lib/iotbx/ccp4_map copying iotbx/ccp4_map/tst.py -> build/lib/iotbx/ccp4_map copying iotbx/ccp4_map/crystal_symmetry_from_ccp4_map.py -> build/lib/iotbx/ccp4_map creating build/lib/iotbx/xplor copying iotbx/xplor/tst_xplormap.py -> build/lib/iotbx/xplor copying iotbx/xplor/crystal_symmetry_from_map.py -> build/lib/iotbx/xplor copying iotbx/xplor/map.py -> build/lib/iotbx/xplor copying iotbx/xplor/__init__.py -> build/lib/iotbx/xplor copying iotbx/xplor/ext.py -> build/lib/iotbx/xplor creating build/lib/iotbx/regression copying iotbx/regression/tst_reflection_statistics.py -> build/lib/iotbx/regression copying iotbx/regression/tst_map_model_manager_call_consistency.py -> build/lib/iotbx/regression copying iotbx/regression/tst_map_model_manager_4.py -> build/lib/iotbx/regression copying iotbx/regression/tst_hierarchy_forward_compatible_pdb.py -> build/lib/iotbx/regression copying iotbx/regression/tst_map_manager_wrapping.py -> build/lib/iotbx/regression copying iotbx/regression/tst_pdb_link_records.py -> build/lib/iotbx/regression copying iotbx/regression/tst_generate_n_char_string.py -> build/lib/iotbx/regression copying iotbx/regression/tst_add_conformations.py -> build/lib/iotbx/regression copying iotbx/regression/tst_hierarchy_long_resname_2.py -> build/lib/iotbx/regression copying iotbx/regression/tst_wildcard.py -> build/lib/iotbx/regression copying iotbx/regression/tst_group_rounding.py -> build/lib/iotbx/regression copying iotbx/regression/tst_atom_selections_10k.py -> build/lib/iotbx/regression copying iotbx/regression/tst_cif_1.py -> build/lib/iotbx/regression copying iotbx/regression/tst_map_model_manager_2.py -> build/lib/iotbx/regression copying iotbx/regression/tst_simple_parser.py -> build/lib/iotbx/regression copying iotbx/regression/tst_file_reader.py -> build/lib/iotbx/regression copying iotbx/regression/tst_reflection_file_editor.py -> build/lib/iotbx/regression copying iotbx/regression/tst_show_systematic_absences.py -> build/lib/iotbx/regression copying iotbx/regression/tst_split_models.py -> build/lib/iotbx/regression copying iotbx/regression/tst_mmcif_input.py -> build/lib/iotbx/regression copying iotbx/regression/tst_hierarchy_long_resname_4.py -> build/lib/iotbx/regression copying iotbx/regression/tst_cli_parser.py -> build/lib/iotbx/regression copying iotbx/regression/tst_map_model_manager_model_sharpening_5_cif.py -> build/lib/iotbx/regression copying iotbx/regression/tst_mrc_io.py -> build/lib/iotbx/regression copying iotbx/regression/tst_hierarchy_long_resname_3.py -> build/lib/iotbx/regression copying iotbx/regression/tst_patterson.py -> build/lib/iotbx/regression copying iotbx/regression/tst_mmcif_segids.py -> build/lib/iotbx/regression copying iotbx/regression/tst_hierarchy_copy_select.py -> build/lib/iotbx/regression copying iotbx/regression/tst_hierarchy_long_resname_1.py -> build/lib/iotbx/regression copying iotbx/regression/tst_map_model_manager_half_map_sharpening_6.py -> build/lib/iotbx/regression copying iotbx/regression/tst_simple_map_coefficients.py -> build/lib/iotbx/regression copying iotbx/regression/tst_hierarchy_long_chain_ids_1.py -> build/lib/iotbx/regression copying iotbx/regression/tst_pdb_as_cif.py -> build/lib/iotbx/regression copying iotbx/regression/tst_map_manager.py -> build/lib/iotbx/regression copying iotbx/regression/tst_pdbx_mmcif_tutorial.py -> build/lib/iotbx/regression copying iotbx/regression/tst_pdb_cif_cells.py -> build/lib/iotbx/regression copying iotbx/regression/tst_mtz_as_cif.py -> build/lib/iotbx/regression copying iotbx/regression/tst_fetch.py -> build/lib/iotbx/regression copying iotbx/regression/tst_hierarchy_pdb_v3.py -> build/lib/iotbx/regression copying iotbx/regression/tst_map_model_manager_3.py -> build/lib/iotbx/regression copying iotbx/regression/tst_map_model_manager_local_resolution_10.py -> build/lib/iotbx/regression copying iotbx/regression/tst_phil.py -> build/lib/iotbx/regression copying iotbx/regression/tst_map_model_manager_9_remove_origin_shift_and_unit_cell_crystal_symmetry.py -> build/lib/iotbx/regression copying iotbx/regression/tst_mmcif_multimodel.py -> build/lib/iotbx/regression copying iotbx/regression/tst_reflection_file_reader.py -> build/lib/iotbx/regression copying iotbx/regression/tst_bioinformatics.py -> build/lib/iotbx/regression copying iotbx/regression/tst_hierarchy_occupancies_rounding.py -> build/lib/iotbx/regression copying iotbx/regression/tst_box_around_molecule.py -> build/lib/iotbx/regression copying iotbx/regression/tst_symmetry.py -> build/lib/iotbx/regression copying iotbx/regression/tst_export_scalepack_unmerged.py -> build/lib/iotbx/regression copying iotbx/regression/tst_miller_sort_asu.py -> build/lib/iotbx/regression copying iotbx/regression/tst_all_chain_ids.py -> build/lib/iotbx/regression copying iotbx/regression/tst_split_data_cif.py -> build/lib/iotbx/regression copying iotbx/regression/tst_sort_atoms.py -> build/lib/iotbx/regression copying iotbx/regression/__init__.py -> build/lib/iotbx/regression copying iotbx/regression/tst_map_manager_2.py -> build/lib/iotbx/regression copying iotbx/regression/tst_examples.py -> build/lib/iotbx/regression copying iotbx/regression/tst_reflection_file_utils.py -> build/lib/iotbx/regression copying iotbx/regression/tst_map_model_manager_cif.py -> build/lib/iotbx/regression copying iotbx/regression/tst_map_model_manager.py -> build/lib/iotbx/regression copying iotbx/regression/tst_merging_statistics.py -> build/lib/iotbx/regression copying iotbx/regression/tst_map_model_manager_model_sharpening_5.py -> build/lib/iotbx/regression copying iotbx/regression/tst_pdb_as_fasta.py -> build/lib/iotbx/regression copying iotbx/regression/tst_pdb_cif_inputs.py -> build/lib/iotbx/regression copying iotbx/regression/tst_map_model_manager_external_sharpening_7.py -> build/lib/iotbx/regression copying iotbx/regression/tst_poscar.py -> build/lib/iotbx/regression copying iotbx/regression/tst_hierarchy_merge_atoms_at_end_to_residues.py -> build/lib/iotbx/regression copying iotbx/regression/tst_csv_utils.py -> build/lib/iotbx/regression copying iotbx/regression/tst_reindex.py -> build/lib/iotbx/regression copying iotbx/regression/tst_data_manager.py -> build/lib/iotbx/regression copying iotbx/regression/tst_selected_hierarchy_flip.py -> build/lib/iotbx/regression copying iotbx/regression/tst_hierarchy_altlocs.py -> build/lib/iotbx/regression copying iotbx/regression/tst_map_model_manager_9_remove_origin_shift_and_unit_cell_crystal_symmetry_cif.py -> build/lib/iotbx/regression copying iotbx/regression/tst_restraints_merge.py -> build/lib/iotbx/regression copying iotbx/regression/tst_xray_scale.py -> build/lib/iotbx/regression copying iotbx/regression/tst_mmcif_to_from_hierarchy.py -> build/lib/iotbx/regression copying iotbx/regression/tst_hierarchy_id_str.py -> build/lib/iotbx/regression copying iotbx/regression/tst_map_model_manager_tls_from_map_8.py -> build/lib/iotbx/regression copying iotbx/regression/tst_data_plots.py -> build/lib/iotbx/regression copying iotbx/regression/tst_phases.py -> build/lib/iotbx/regression copying iotbx/regression/tst_lattice_symmetry.py -> build/lib/iotbx/regression copying iotbx/regression/tst_crystal_symmetry_from_any.py -> build/lib/iotbx/regression copying iotbx/regression/utils.py -> build/lib/iotbx/regression copying iotbx/regression/tst_map_tools.py -> build/lib/iotbx/regression copying iotbx/regression/tst_extract_xtal_data.py -> build/lib/iotbx/regression copying iotbx/regression/tst_cif_as_pdb_1atom.py -> build/lib/iotbx/regression creating build/lib/iotbx/data_manager copying iotbx/data_manager/model.py -> build/lib/iotbx/data_manager copying iotbx/data_manager/phil.py -> build/lib/iotbx/data_manager copying iotbx/data_manager/ncs_spec.py -> build/lib/iotbx/data_manager copying iotbx/data_manager/sequence.py -> build/lib/iotbx/data_manager copying iotbx/data_manager/common.py -> build/lib/iotbx/data_manager copying iotbx/data_manager/miller_array.py -> build/lib/iotbx/data_manager copying iotbx/data_manager/real_map.py -> build/lib/iotbx/data_manager copying iotbx/data_manager/__init__.py -> build/lib/iotbx/data_manager copying iotbx/data_manager/restraint.py -> build/lib/iotbx/data_manager copying iotbx/data_manager/map_coefficients.py -> build/lib/iotbx/data_manager creating build/lib/iotbx/PrettyPrint copying iotbx/PrettyPrint/tables.py -> build/lib/iotbx/PrettyPrint copying iotbx/PrettyPrint/__init__.py -> build/lib/iotbx/PrettyPrint creating build/lib/iotbx/dsn6 copying iotbx/dsn6/__init__.py -> build/lib/iotbx/dsn6 copying iotbx/dsn6/tst.py -> build/lib/iotbx/dsn6 creating build/lib/iotbx/cif copying iotbx/cif/citations.py -> build/lib/iotbx/cif copying iotbx/cif/model.py -> build/lib/iotbx/cif copying iotbx/cif/builders.py -> build/lib/iotbx/cif copying iotbx/cif/validation.py -> build/lib/iotbx/cif copying iotbx/cif/restraint_file_merge.py -> build/lib/iotbx/cif copying iotbx/cif/__init__.py -> build/lib/iotbx/cif copying iotbx/cif/geometry.py -> build/lib/iotbx/cif copying iotbx/cif/errors.py -> build/lib/iotbx/cif copying iotbx/cif/crystal_symmetry_from_cif.py -> build/lib/iotbx/cif copying iotbx/cif/restraints.py -> build/lib/iotbx/cif copying iotbx/cif/cod_tools.py -> build/lib/iotbx/cif creating build/lib/iotbx/solve copying iotbx/solve/crystal_symmetry_from_inp.py -> build/lib/iotbx/solve copying iotbx/solve/fpfm_reader.py -> build/lib/iotbx/solve copying iotbx/solve/__init__.py -> build/lib/iotbx/solve creating build/lib/iotbx/mtz copying iotbx/mtz/tst_miller_dict.py -> build/lib/iotbx/mtz copying iotbx/mtz/tst_unmerged.py -> build/lib/iotbx/mtz copying iotbx/mtz/tst_extract_from_symmetry_lib.py -> build/lib/iotbx/mtz copying iotbx/mtz/tst_dano.py -> build/lib/iotbx/mtz copying iotbx/mtz/extract_from_symmetry_lib.py -> build/lib/iotbx/mtz copying iotbx/mtz/crystal_symmetry_from_mtz.py -> build/lib/iotbx/mtz copying iotbx/mtz/__init__.py -> build/lib/iotbx/mtz copying iotbx/mtz/tst.py -> build/lib/iotbx/mtz copying iotbx/mtz/tst_ext.py -> build/lib/iotbx/mtz creating build/lib/iotbx/bioinformatics copying iotbx/bioinformatics/pdb_info.py -> build/lib/iotbx/bioinformatics copying iotbx/bioinformatics/pubmed.py -> build/lib/iotbx/bioinformatics copying iotbx/bioinformatics/local_blast.py -> build/lib/iotbx/bioinformatics copying iotbx/bioinformatics/xmlbuild.py -> build/lib/iotbx/bioinformatics copying iotbx/bioinformatics/ncbi_blast_xml.py -> build/lib/iotbx/bioinformatics copying iotbx/bioinformatics/ebi_wu_blast_xml.py -> build/lib/iotbx/bioinformatics copying iotbx/bioinformatics/homologues.py -> build/lib/iotbx/bioinformatics copying iotbx/bioinformatics/__init__.py -> build/lib/iotbx/bioinformatics copying iotbx/bioinformatics/alignment_as_hsearch.py -> build/lib/iotbx/bioinformatics copying iotbx/bioinformatics/structure.py -> build/lib/iotbx/bioinformatics creating build/lib/iotbx/scalepack copying iotbx/scalepack/tst_merge.py -> build/lib/iotbx/scalepack copying iotbx/scalepack/tst_no_merge_original_index.py -> build/lib/iotbx/scalepack copying iotbx/scalepack/merge.py -> build/lib/iotbx/scalepack copying iotbx/scalepack/no_merge_original_index.py -> build/lib/iotbx/scalepack copying iotbx/scalepack/space_group_dictionary.py -> build/lib/iotbx/scalepack copying iotbx/scalepack/__init__.py -> build/lib/iotbx/scalepack copying iotbx/scalepack/crystal_symmetry_from_hkl.py -> build/lib/iotbx/scalepack creating build/lib/iotbx/detectors copying iotbx/detectors/tst_adsc.py -> build/lib/iotbx/detectors copying iotbx/detectors/macscience.py -> build/lib/iotbx/detectors copying iotbx/detectors/dtrek.py -> build/lib/iotbx/detectors copying iotbx/detectors/tst_py_cbf.py -> build/lib/iotbx/detectors copying iotbx/detectors/tst_cbf_comp_read_meth.py -> build/lib/iotbx/detectors copying iotbx/detectors/cbf.py -> build/lib/iotbx/detectors copying iotbx/detectors/test_mar.py -> build/lib/iotbx/detectors copying iotbx/detectors/detectorbase.py -> build/lib/iotbx/detectors copying iotbx/detectors/adsc.py -> build/lib/iotbx/detectors copying iotbx/detectors/noir.py -> build/lib/iotbx/detectors copying iotbx/detectors/edf.py -> build/lib/iotbx/detectors copying iotbx/detectors/pilatus_slice.py -> build/lib/iotbx/detectors copying iotbx/detectors/raxisbase.py -> build/lib/iotbx/detectors copying iotbx/detectors/adsc_module.py -> build/lib/iotbx/detectors copying iotbx/detectors/mar.py -> build/lib/iotbx/detectors copying iotbx/detectors/adsc_minicbf.py -> build/lib/iotbx/detectors copying iotbx/detectors/tst_detectors.py -> build/lib/iotbx/detectors copying iotbx/detectors/generic_detector.py -> build/lib/iotbx/detectors copying iotbx/detectors/tst_debug_write.py -> build/lib/iotbx/detectors copying iotbx/detectors/eiger.py -> build/lib/iotbx/detectors copying iotbx/detectors/saturn.py -> build/lib/iotbx/detectors copying iotbx/detectors/beam_center_convention.py -> build/lib/iotbx/detectors copying iotbx/detectors/pilatus_minicbf.py -> build/lib/iotbx/detectors copying iotbx/detectors/eiger_minicbf.py -> build/lib/iotbx/detectors copying iotbx/detectors/__init__.py -> build/lib/iotbx/detectors copying iotbx/detectors/hamamatsu.py -> build/lib/iotbx/detectors copying iotbx/detectors/url_support.py -> build/lib/iotbx/detectors copying iotbx/detectors/test_raxis2.py -> build/lib/iotbx/detectors copying iotbx/detectors/raxis.py -> build/lib/iotbx/detectors copying iotbx/detectors/bruker.py -> build/lib/iotbx/detectors copying iotbx/detectors/marIP.py -> build/lib/iotbx/detectors copying iotbx/detectors/active_area_filter.py -> build/lib/iotbx/detectors copying iotbx/detectors/raxis_nonsquare.py -> build/lib/iotbx/detectors copying iotbx/detectors/image_from_http_request.py -> build/lib/iotbx/detectors copying iotbx/detectors/cspad_detector_formats.py -> build/lib/iotbx/detectors copying iotbx/detectors/npy.py -> build/lib/iotbx/detectors creating build/lib/iotbx/gui_tools copying iotbx/gui_tools/import_data_and_flags.py -> build/lib/iotbx/gui_tools copying iotbx/gui_tools/reflections.py -> build/lib/iotbx/gui_tools copying iotbx/gui_tools/cif_conversions.py -> build/lib/iotbx/gui_tools copying iotbx/gui_tools/__init__.py -> build/lib/iotbx/gui_tools copying iotbx/gui_tools/models.py -> build/lib/iotbx/gui_tools copying iotbx/gui_tools/tst.py -> build/lib/iotbx/gui_tools creating build/lib/iotbx/mrcfile copying iotbx/mrcfile/__init__.py -> build/lib/iotbx/mrcfile copying iotbx/mrcfile/crystal_symmetry_from_ccp4_map.py -> build/lib/iotbx/mrcfile creating build/lib/iotbx/kriber copying iotbx/kriber/strudat.py -> build/lib/iotbx/kriber copying iotbx/kriber/__init__.py -> build/lib/iotbx/kriber copying iotbx/kriber/tst_strudat.py -> build/lib/iotbx/kriber creating build/lib/iotbx/pdb copying iotbx/pdb/download.py -> build/lib/iotbx/pdb copying iotbx/pdb/tst_rna_dna_atom_names.py -> build/lib/iotbx/pdb copying iotbx/pdb/remark_290_interpretation.py -> build/lib/iotbx/pdb copying iotbx/pdb/tst_extract_rfactors_resolutions_sigma.py -> build/lib/iotbx/pdb copying iotbx/pdb/cryst1_interpretation.py -> build/lib/iotbx/pdb copying iotbx/pdb/amino_acid_codes.py -> build/lib/iotbx/pdb copying iotbx/pdb/tst_hierarchy_flip_symmetric.py -> build/lib/iotbx/pdb copying iotbx/pdb/aa_utils.py -> build/lib/iotbx/pdb copying iotbx/pdb/nucleic_acid_codes.py -> build/lib/iotbx/pdb copying iotbx/pdb/tst_secondary_structure.py -> build/lib/iotbx/pdb copying iotbx/pdb/remark_2_interpretation.py -> build/lib/iotbx/pdb copying iotbx/pdb/tst_hierarchy_flip_symmetric_2.py -> build/lib/iotbx/pdb copying iotbx/pdb/web_service_api.py -> build/lib/iotbx/pdb copying iotbx/pdb/mmcif.py -> build/lib/iotbx/pdb copying iotbx/pdb/tst_atom_selection.py -> build/lib/iotbx/pdb copying iotbx/pdb/remark_3_interpretation.py -> build/lib/iotbx/pdb copying iotbx/pdb/tst_secondary_structure_2.py -> build/lib/iotbx/pdb copying iotbx/pdb/tst_hierarchy.py -> build/lib/iotbx/pdb copying iotbx/pdb/tst_utils.py -> build/lib/iotbx/pdb copying iotbx/pdb/pdbe.py -> build/lib/iotbx/pdb copying iotbx/pdb/extract_rfactors_resolutions_sigma.py -> build/lib/iotbx/pdb copying iotbx/pdb/modified_aa_names.py -> build/lib/iotbx/pdb copying iotbx/pdb/hierarchy.py -> build/lib/iotbx/pdb copying iotbx/pdb/atom_name_interpretation.py -> build/lib/iotbx/pdb copying iotbx/pdb/secondary_structure.py -> build/lib/iotbx/pdb copying iotbx/pdb/tst_atom_selection_string.py -> build/lib/iotbx/pdb copying iotbx/pdb/experiment_type.py -> build/lib/iotbx/pdb copying iotbx/pdb/tst_hierarchy_atom_sort.py -> build/lib/iotbx/pdb copying iotbx/pdb/tst_pdb.py -> build/lib/iotbx/pdb copying iotbx/pdb/atom_selection.py -> build/lib/iotbx/pdb copying iotbx/pdb/xray_structure.py -> build/lib/iotbx/pdb copying iotbx/pdb/forward_compatible_pdb_cif_conversion.py -> build/lib/iotbx/pdb copying iotbx/pdb/__init__.py -> build/lib/iotbx/pdb copying iotbx/pdb/tst_read_mtrix_records_from_cif.py -> build/lib/iotbx/pdb copying iotbx/pdb/rna_dna_detection.py -> build/lib/iotbx/pdb copying iotbx/pdb/tst_mmcif_hierarchy.py -> build/lib/iotbx/pdb copying iotbx/pdb/modified_rna_dna_names.py -> build/lib/iotbx/pdb copying iotbx/pdb/hybrid_36.py -> build/lib/iotbx/pdb copying iotbx/pdb/tst_atom_name_interpretation.py -> build/lib/iotbx/pdb copying iotbx/pdb/tst_mmcif.py -> build/lib/iotbx/pdb copying iotbx/pdb/rcsb.py -> build/lib/iotbx/pdb copying iotbx/pdb/tst_tls.py -> build/lib/iotbx/pdb copying iotbx/pdb/misc_records_output.py -> build/lib/iotbx/pdb copying iotbx/pdb/tst_mmcif_hierarchy_2.py -> build/lib/iotbx/pdb copying iotbx/pdb/crystal_symmetry_from_pdb.py -> build/lib/iotbx/pdb copying iotbx/pdb/fetch.py -> build/lib/iotbx/pdb copying iotbx/pdb/records.py -> build/lib/iotbx/pdb copying iotbx/pdb/tst_ext.py -> build/lib/iotbx/pdb copying iotbx/pdb/utils.py -> build/lib/iotbx/pdb copying iotbx/pdb/pdb_v3_cif_conversion.py -> build/lib/iotbx/pdb creating build/lib/iotbx/ncs copying iotbx/ncs/__init__.py -> build/lib/iotbx/ncs creating build/lib/iotbx/programs copying iotbx/programs/split_data_cif.py -> build/lib/iotbx/programs copying iotbx/programs/unique_with_biomt.py -> build/lib/iotbx/programs copying iotbx/programs/box_around_molecule.py -> build/lib/iotbx/programs copying iotbx/programs/__init__.py -> build/lib/iotbx/programs creating build/lib/iotbx/cns copying iotbx/cns/crystal_symmetry_from_inp.py -> build/lib/iotbx/cns copying iotbx/cns/reflection_reader.py -> build/lib/iotbx/cns copying iotbx/cns/crystal_symmetry_utils.py -> build/lib/iotbx/cns copying iotbx/cns/sdb_reader.py -> build/lib/iotbx/cns copying iotbx/cns/sdb_writer.py -> build/lib/iotbx/cns copying iotbx/cns/tst_cns.py -> build/lib/iotbx/cns copying iotbx/cns/xray_structure.py -> build/lib/iotbx/cns copying iotbx/cns/miller_array.py -> build/lib/iotbx/cns copying iotbx/cns/__init__.py -> build/lib/iotbx/cns copying iotbx/cns/space_group_symbols.py -> build/lib/iotbx/cns copying iotbx/cns/crystal_symmetry_from_sdb.py -> build/lib/iotbx/cns copying iotbx/cns/pdb_remarks.py -> build/lib/iotbx/cns copying iotbx/cns/index_fobs_sigma_reader.py -> build/lib/iotbx/cns creating build/lib/iotbx/examples/pdb_truncate_to_ala copying iotbx/examples/pdb_truncate_to_ala/v0_getting_started.py -> build/lib/iotbx/examples/pdb_truncate_to_ala copying iotbx/examples/pdb_truncate_to_ala/v3_better.py -> build/lib/iotbx/examples/pdb_truncate_to_ala copying iotbx/examples/pdb_truncate_to_ala/v1_loop_over_atoms.py -> build/lib/iotbx/examples/pdb_truncate_to_ala copying iotbx/examples/pdb_truncate_to_ala/v4_with_bells_and_whistles.py -> build/lib/iotbx/examples/pdb_truncate_to_ala copying iotbx/examples/pdb_truncate_to_ala/v2_simple.py -> build/lib/iotbx/examples/pdb_truncate_to_ala copying iotbx/examples/pdb_truncate_to_ala/__init__.py -> build/lib/iotbx/examples/pdb_truncate_to_ala copying iotbx/examples/pdb_truncate_to_ala/tst.py -> build/lib/iotbx/examples/pdb_truncate_to_ala creating build/lib/iotbx/regression/ncs copying iotbx/regression/ncs/tst_ncs_user_selections.py -> build/lib/iotbx/regression/ncs copying iotbx/regression/ncs/tst_ncs_groups_preprocessing.py -> build/lib/iotbx/regression/ncs copying iotbx/regression/ncs/tst_ncs_without_validation.py -> build/lib/iotbx/regression/ncs copying iotbx/regression/ncs/tst_ncs_search_shortcut_1.py -> build/lib/iotbx/regression/ncs copying iotbx/regression/ncs/tst_mtrix_biomt_cmdl.py -> build/lib/iotbx/regression/ncs copying iotbx/regression/ncs/__init__.py -> build/lib/iotbx/regression/ncs copying iotbx/regression/ncs/tst_ncs_input.py -> build/lib/iotbx/regression/ncs copying iotbx/regression/ncs/tst_ncs.py -> build/lib/iotbx/regression/ncs copying iotbx/regression/ncs/tst_ncs_reordered_chains.py -> build/lib/iotbx/regression/ncs copying iotbx/regression/ncs/tst_mmcif_biomt_reduction_output.py -> build/lib/iotbx/regression/ncs copying iotbx/regression/ncs/tst_ncs_search_broken_chain.py -> build/lib/iotbx/regression/ncs copying iotbx/regression/ncs/tst_ncs_search_ligs.py -> build/lib/iotbx/regression/ncs creating build/lib/iotbx/detectors/context copying iotbx/detectors/context/endstation_max_iv_trial.py -> build/lib/iotbx/detectors/context copying iotbx/detectors/context/spot_xy_convention.py -> build/lib/iotbx/detectors/context copying iotbx/detectors/context/config_detector.py -> build/lib/iotbx/detectors/context copying iotbx/detectors/context/endstation.py -> build/lib/iotbx/detectors/context copying iotbx/detectors/context/camera_convention.py -> build/lib/iotbx/detectors/context copying iotbx/detectors/context/__init__.py -> build/lib/iotbx/detectors/context creating build/lib/iotbx/detectors/util copying iotbx/detectors/util/__init__.py -> build/lib/iotbx/detectors/util copying iotbx/detectors/util/filters.py -> build/lib/iotbx/detectors/util creating build/lib/iotbx/pdb/remediation copying iotbx/pdb/remediation/remediator.py -> build/lib/iotbx/pdb/remediation copying iotbx/pdb/remediation/__init__.py -> build/lib/iotbx/pdb/remediation copying iotbx/pdb/remediation/tst_remediator.py -> build/lib/iotbx/pdb/remediation creating build/lib/qttbx/viewers copying qttbx/viewers/__init__.py -> build/lib/qttbx/viewers copying qttbx/viewers/chimerax.py -> build/lib/qttbx/viewers creating build/lib/simtbx/gpu copying simtbx/gpu/tst_shoeboxes.py -> build/lib/simtbx/gpu copying simtbx/gpu/tst_gpu_multisource_background.py -> build/lib/simtbx/gpu copying simtbx/gpu/__init__.py -> build/lib/simtbx/gpu copying simtbx/gpu/tst_exafel_api.py -> build/lib/simtbx/gpu creating build/lib/simtbx/kokkos copying simtbx/kokkos/tst_kokkos_lib.py -> build/lib/simtbx/kokkos copying simtbx/kokkos/__init__.py -> build/lib/simtbx/kokkos creating build/lib/simtbx/pixel copying simtbx/pixel/__init__.py -> build/lib/simtbx/pixel creating build/lib/simtbx/diffBragg copying simtbx/diffBragg/ensemble_refine_launcher.py -> build/lib/simtbx/diffBragg copying simtbx/diffBragg/phil.py -> build/lib/simtbx/diffBragg copying simtbx/diffBragg/psf.py -> build/lib/simtbx/diffBragg copying simtbx/diffBragg/attr_list.py -> build/lib/simtbx/diffBragg copying simtbx/diffBragg/device.py -> build/lib/simtbx/diffBragg copying simtbx/diffBragg/hopper_io.py -> build/lib/simtbx/diffBragg copying simtbx/diffBragg/mpi_logger.py -> build/lib/simtbx/diffBragg copying simtbx/diffBragg/hopper_ensemble_utils.py -> build/lib/simtbx/diffBragg copying simtbx/diffBragg/hopper_utils.py -> build/lib/simtbx/diffBragg copying simtbx/diffBragg/prep_stage2_input.py -> build/lib/simtbx/diffBragg copying simtbx/diffBragg/stage_two_utils.py -> build/lib/simtbx/diffBragg copying simtbx/diffBragg/__init__.py -> build/lib/simtbx/diffBragg copying simtbx/diffBragg/parameter_errors.py -> build/lib/simtbx/diffBragg copying simtbx/diffBragg/utils.py -> build/lib/simtbx/diffBragg creating build/lib/simtbx/nanoBragg copying simtbx/nanoBragg/nanoBragg_crystal.py -> build/lib/simtbx/nanoBragg copying simtbx/nanoBragg/nanoBragg_gui_init.py -> build/lib/simtbx/nanoBragg copying simtbx/nanoBragg/nanoBragg_input.py -> build/lib/simtbx/nanoBragg copying simtbx/nanoBragg/tst_multisource_background.py -> build/lib/simtbx/nanoBragg copying simtbx/nanoBragg/tst_nanoBragg_minimal.py -> build/lib/simtbx/nanoBragg copying simtbx/nanoBragg/tst_anisotropic_mosaicity.py -> build/lib/simtbx/nanoBragg copying simtbx/nanoBragg/tst_nanoBragg_basic.py -> build/lib/simtbx/nanoBragg copying simtbx/nanoBragg/tst_gaussian_mosaicity2.py -> build/lib/simtbx/nanoBragg copying simtbx/nanoBragg/tst_nanoBragg_pilatus.py -> build/lib/simtbx/nanoBragg copying simtbx/nanoBragg/nanoBragg_gui_dialogs.py -> build/lib/simtbx/nanoBragg copying simtbx/nanoBragg/tst_gaussian_mosaicity.py -> build/lib/simtbx/nanoBragg copying simtbx/nanoBragg/sim_data.py -> build/lib/simtbx/nanoBragg copying simtbx/nanoBragg/nanoBragg_beam.py -> build/lib/simtbx/nanoBragg copying simtbx/nanoBragg/nanoBragg_threads.py -> build/lib/simtbx/nanoBragg copying simtbx/nanoBragg/__init__.py -> build/lib/simtbx/nanoBragg copying simtbx/nanoBragg/tst_nanoBragg_cbf_write.py -> build/lib/simtbx/nanoBragg copying simtbx/nanoBragg/tst_nanoBragg_multipanel.py -> build/lib/simtbx/nanoBragg copying simtbx/nanoBragg/tst_gauss_argchk.py -> build/lib/simtbx/nanoBragg copying simtbx/nanoBragg/tst_nanoBragg_mosaic.py -> build/lib/simtbx/nanoBragg copying simtbx/nanoBragg/nanoBragg_gui_frames.py -> build/lib/simtbx/nanoBragg copying simtbx/nanoBragg/anisotropic_mosaicity.py -> build/lib/simtbx/nanoBragg copying simtbx/nanoBragg/utils.py -> build/lib/simtbx/nanoBragg creating build/lib/simtbx/modeling copying simtbx/modeling/FormatHDF5AttributeGeometry.py -> build/lib/simtbx/modeling copying simtbx/modeling/__init__.py -> build/lib/simtbx/modeling copying simtbx/modeling/forward_models.py -> build/lib/simtbx/modeling copying simtbx/modeling/predictions.py -> build/lib/simtbx/modeling creating build/lib/simtbx/diffBragg/refiners copying simtbx/diffBragg/refiners/parameters.py -> build/lib/simtbx/diffBragg/refiners copying simtbx/diffBragg/refiners/stage_two_refiner.py -> build/lib/simtbx/diffBragg/refiners copying simtbx/diffBragg/refiners/__init__.py -> build/lib/simtbx/diffBragg/refiners copying simtbx/diffBragg/refiners/geometry.py -> build/lib/simtbx/diffBragg/refiners copying simtbx/diffBragg/refiners/base_refiner.py -> build/lib/simtbx/diffBragg/refiners creating build/lib/simtbx/diffBragg/refiners/crystal_systems copying simtbx/diffBragg/refiners/crystal_systems/manager.py -> build/lib/simtbx/diffBragg/refiners/crystal_systems copying simtbx/diffBragg/refiners/crystal_systems/tetragonal.py -> build/lib/simtbx/diffBragg/refiners/crystal_systems copying simtbx/diffBragg/refiners/crystal_systems/__init__.py -> build/lib/simtbx/diffBragg/refiners/crystal_systems copying simtbx/diffBragg/refiners/crystal_systems/orthorhombic.py -> build/lib/simtbx/diffBragg/refiners/crystal_systems copying simtbx/diffBragg/refiners/crystal_systems/monoclinic.py -> build/lib/simtbx/diffBragg/refiners/crystal_systems copying simtbx/diffBragg/refiners/crystal_systems/hexagonal.py -> build/lib/simtbx/diffBragg/refiners/crystal_systems creating build/lib/xcif/regression copying xcif/regression/tst_bindings.py -> build/lib/xcif/regression copying xcif/regression/tst_example_tokenize.py -> build/lib/xcif/regression copying xcif/regression/tst_utf8.py -> build/lib/xcif/regression copying xcif/regression/tst_pdb_coordinates.py -> build/lib/xcif/regression copying xcif/regression/tst_iotbx_cif_reader_parity.py -> build/lib/xcif/regression copying xcif/regression/tst_gil_release.py -> build/lib/xcif/regression copying xcif/regression/tst_semicolon_field_strict.py -> build/lib/xcif/regression copying xcif/regression/tst_string_interning.py -> build/lib/xcif/regression copying xcif/regression/tst_quoted_string_delimiter.py -> build/lib/xcif/regression copying xcif/regression/tst_non_strict_mode.py -> build/lib/xcif/regression copying xcif/regression/tst_example_parse.py -> build/lib/xcif/regression copying xcif/regression/tst_memory.py -> build/lib/xcif/regression copying xcif/regression/tst_iotbx_cif_reader_engine.py -> build/lib/xcif/regression copying xcif/regression/tst_api_compat.py -> build/lib/xcif/regression copying xcif/regression/tst_roundtrip.py -> build/lib/xcif/regression copying xcif/regression/__init__.py -> build/lib/xcif/regression copying xcif/regression/tst_parse_verify.py -> build/lib/xcif/regression copying xcif/regression/tst_pdb_sf.py -> build/lib/xcif/regression creating build/lib/xcif/benchmarks copying xcif/benchmarks/__init__.py -> build/lib/xcif/benchmarks copying xcif/benchmarks/run_benchmarks.py -> build/lib/xcif/benchmarks creating build/lib/serialtbx/detector copying serialtbx/detector/rayonix.py -> build/lib/serialtbx/detector copying serialtbx/detector/cspad.py -> build/lib/serialtbx/detector copying serialtbx/detector/__init__.py -> build/lib/serialtbx/detector copying serialtbx/detector/xtc.py -> build/lib/serialtbx/detector copying serialtbx/detector/jungfrau.py -> build/lib/serialtbx/detector creating build/lib/serialtbx/mono_simulation copying serialtbx/mono_simulation/util.py -> build/lib/serialtbx/mono_simulation copying serialtbx/mono_simulation/__init__.py -> build/lib/serialtbx/mono_simulation copying serialtbx/mono_simulation/max_like.py -> build/lib/serialtbx/mono_simulation creating build/lib/serialtbx/util copying serialtbx/util/energy_scan_notch_finder.py -> build/lib/serialtbx/util copying serialtbx/util/construct_frame.py -> build/lib/serialtbx/util copying serialtbx/util/__init__.py -> build/lib/serialtbx/util copying serialtbx/util/time.py -> build/lib/serialtbx/util creating build/lib/serialtbx/detector/legacy_metrology copying serialtbx/detector/legacy_metrology/metrology.py -> build/lib/serialtbx/detector/legacy_metrology copying serialtbx/detector/legacy_metrology/generic_detector.py -> build/lib/serialtbx/detector/legacy_metrology copying serialtbx/detector/legacy_metrology/__init__.py -> build/lib/serialtbx/detector/legacy_metrology copying serialtbx/detector/legacy_metrology/cspad_detector.py -> build/lib/serialtbx/detector/legacy_metrology creating build/lib/scitbx/command_line copying scitbx/command_line/show_sizes.py -> build/lib/scitbx/command_line copying scitbx/command_line/histogram.py -> build/lib/scitbx/command_line copying scitbx/command_line/generate_error_h.py -> build/lib/scitbx/command_line copying scitbx/command_line/show_exp_times.py -> build/lib/scitbx/command_line copying scitbx/command_line/__init__.py -> build/lib/scitbx/command_line copying scitbx/command_line/apply_tapenade_hints.py -> build/lib/scitbx/command_line copying scitbx/command_line/unicode_examples.py -> build/lib/scitbx/command_line creating build/lib/scitbx/examples copying scitbx/examples/bootstrap.py -> build/lib/scitbx/examples copying scitbx/examples/integrating_a_weighted_sinc_function.py -> build/lib/scitbx/examples copying scitbx/examples/functions.py -> build/lib/scitbx/examples copying scitbx/examples/minimizer_comparisons.py -> build/lib/scitbx/examples copying scitbx/examples/lbfgs_linear_least_squares_fit.py -> build/lib/scitbx/examples copying scitbx/examples/flex_array_loops.py -> build/lib/scitbx/examples copying scitbx/examples/principal_axes_of_inertia.py -> build/lib/scitbx/examples copying scitbx/examples/immoptibox_ports.py -> build/lib/scitbx/examples copying scitbx/examples/chebyshev_lsq_example.py -> build/lib/scitbx/examples copying scitbx/examples/flex_grid.py -> build/lib/scitbx/examples copying scitbx/examples/__init__.py -> build/lib/scitbx/examples copying scitbx/examples/lbfgs_recipe.py -> build/lib/scitbx/examples copying scitbx/examples/rigid_body_refinement_core.py -> build/lib/scitbx/examples creating build/lib/scitbx/stl copying scitbx/stl/tst_map.py -> build/lib/scitbx/stl copying scitbx/stl/vector.py -> build/lib/scitbx/stl copying scitbx/stl/set.py -> build/lib/scitbx/stl copying scitbx/stl/map.py -> build/lib/scitbx/stl copying scitbx/stl/__init__.py -> build/lib/scitbx/stl copying scitbx/stl/tst_set.py -> build/lib/scitbx/stl copying scitbx/stl/tst_vector.py -> build/lib/scitbx/stl creating build/lib/scitbx/stdlib copying scitbx/stdlib/__init__.py -> build/lib/scitbx/stdlib creating build/lib/scitbx/suffixtree copying scitbx/suffixtree/__init__.py -> build/lib/scitbx/suffixtree copying scitbx/suffixtree/single.py -> build/lib/scitbx/suffixtree creating build/lib/scitbx/lbfgs copying scitbx/lbfgs/tst_func_free_line_search.py -> build/lib/scitbx/lbfgs copying scitbx/lbfgs/tst_curvatures.py -> build/lib/scitbx/lbfgs copying scitbx/lbfgs/tst_mpi_split_evaluator.py -> build/lib/scitbx/lbfgs copying scitbx/lbfgs/__init__.py -> build/lib/scitbx/lbfgs copying scitbx/lbfgs/tst_lbfgs_fem.py -> build/lib/scitbx/lbfgs copying scitbx/lbfgs/tst_ext.py -> build/lib/scitbx/lbfgs creating build/lib/scitbx/graph copying scitbx/graph/test_cases_tardy_pdb.py -> build/lib/scitbx/graph copying scitbx/graph/rigidity_matrix_symbolic.py -> build/lib/scitbx/graph copying scitbx/graph/tst_utils.py -> build/lib/scitbx/graph copying scitbx/graph/tst_rigidity.py -> build/lib/scitbx/graph copying scitbx/graph/tst_tardy_tree_find_paths.py -> build/lib/scitbx/graph copying scitbx/graph/rigidity.py -> build/lib/scitbx/graph copying scitbx/graph/__init__.py -> build/lib/scitbx/graph copying scitbx/graph/tst_tardy_tree.py -> build/lib/scitbx/graph copying scitbx/graph/tardy_tree.py -> build/lib/scitbx/graph copying scitbx/graph/utils.py -> build/lib/scitbx/graph creating build/lib/scitbx/matrix copying scitbx/matrix/row_echelon.py -> build/lib/scitbx/matrix copying scitbx/matrix/__init__.py -> build/lib/scitbx/matrix creating build/lib/scitbx/slatec copying scitbx/slatec/__init__.py -> build/lib/scitbx/slatec creating build/lib/scitbx/linalg copying scitbx/linalg/householder.py -> build/lib/scitbx/linalg copying scitbx/linalg/svd.py -> build/lib/scitbx/linalg copying scitbx/linalg/eigensystem.py -> build/lib/scitbx/linalg copying scitbx/linalg/__init__.py -> build/lib/scitbx/linalg copying scitbx/linalg/ext.py -> build/lib/scitbx/linalg creating build/lib/scitbx/wigner copying scitbx/wigner/__init__.py -> build/lib/scitbx/wigner copying scitbx/wigner/tst_wigner3j.py -> build/lib/scitbx/wigner creating build/lib/scitbx/dtmin copying scitbx/dtmin/reparams.py -> build/lib/scitbx/dtmin copying scitbx/dtmin/min_logging.py -> build/lib/scitbx/dtmin copying scitbx/dtmin/refinebase.py -> build/lib/scitbx/dtmin copying scitbx/dtmin/bounds.py -> build/lib/scitbx/dtmin copying scitbx/dtmin/auxiliary.py -> build/lib/scitbx/dtmin copying scitbx/dtmin/optional.py -> build/lib/scitbx/dtmin copying scitbx/dtmin/minimizer.py -> build/lib/scitbx/dtmin copying scitbx/dtmin/__init__.py -> build/lib/scitbx/dtmin copying scitbx/dtmin/compulsory.py -> build/lib/scitbx/dtmin copying scitbx/dtmin/realsymmetricpseudoinverse.py -> build/lib/scitbx/dtmin copying scitbx/dtmin/twisted_gaussian.py -> build/lib/scitbx/dtmin creating build/lib/scitbx/serialization copying scitbx/serialization/__init__.py -> build/lib/scitbx/serialization creating build/lib/scitbx/iso_surface copying scitbx/iso_surface/__init__.py -> build/lib/scitbx/iso_surface copying scitbx/iso_surface/tst_iso_surface.py -> build/lib/scitbx/iso_surface creating build/lib/scitbx/tests copying scitbx/tests/simplex.py -> build/lib/scitbx/tests copying scitbx/tests/tst_r3_utils.py -> build/lib/scitbx/tests copying scitbx/tests/tst_basic.py -> build/lib/scitbx/tests copying scitbx/tests/differential_evolution.py -> build/lib/scitbx/tests copying scitbx/tests/direct_search_simulated_annealing.py -> build/lib/scitbx/tests copying scitbx/tests/golden_section_search.py -> build/lib/scitbx/tests copying scitbx/tests/tst_minimizer_lbfgs_general.py -> build/lib/scitbx/tests copying scitbx/tests/tst_genetic_algorithm_with_mp.py -> build/lib/scitbx/tests copying scitbx/tests/__init__.py -> build/lib/scitbx/tests copying scitbx/tests/tst_cubicle_neighbors.py -> build/lib/scitbx/tests copying scitbx/tests/tst_smoothing.py -> build/lib/scitbx/tests copying scitbx/tests/tst_regular_grid_on_unit_sphere.py -> build/lib/scitbx/tests creating build/lib/scitbx/array_family copying scitbx/array_family/flex.py -> build/lib/scitbx/array_family copying scitbx/array_family/__init__.py -> build/lib/scitbx/array_family copying scitbx/array_family/shared.py -> build/lib/scitbx/array_family creating build/lib/scitbx/math copying scitbx/math/chebyshev_lsq_fit.py -> build/lib/scitbx/math copying scitbx/math/gaussian_fit.py -> build/lib/scitbx/math copying scitbx/math/distributions.py -> build/lib/scitbx/math copying scitbx/math/tst_undirected_graph.py -> build/lib/scitbx/math copying scitbx/math/curve_fitting.py -> build/lib/scitbx/math copying scitbx/math/incremental_SO3_sampling.py -> build/lib/scitbx/math copying scitbx/math/tst_zernike_mom.py -> build/lib/scitbx/math copying scitbx/math/minimum_covering_ellipsoid.py -> build/lib/scitbx/math copying scitbx/math/tst_multivariate_moments.py -> build/lib/scitbx/math copying scitbx/math/cubic_spline.py -> build/lib/scitbx/math copying scitbx/math/fit_peak.py -> build/lib/scitbx/math copying scitbx/math/tst_zernike.py -> build/lib/scitbx/math copying scitbx/math/clustering.py -> build/lib/scitbx/math copying scitbx/math/des_3_100_13.py -> build/lib/scitbx/math copying scitbx/math/sphere_sphere_intersection.py -> build/lib/scitbx/math copying scitbx/math/tst_so3_lie_algebra.py -> build/lib/scitbx/math copying scitbx/math/undirected_graph.py -> build/lib/scitbx/math copying scitbx/math/des_3_240_21.py -> build/lib/scitbx/math copying scitbx/math/zernike_align_fft.py -> build/lib/scitbx/math copying scitbx/math/scale_curves.py -> build/lib/scitbx/math copying scitbx/math/tst_2d_zernike.py -> build/lib/scitbx/math copying scitbx/math/so3_lie_algebra.py -> build/lib/scitbx/math copying scitbx/math/sieve_of_eratosthenes.py -> build/lib/scitbx/math copying scitbx/math/spe.py -> build/lib/scitbx/math copying scitbx/math/breakpoint.py -> build/lib/scitbx/math copying scitbx/math/__init__.py -> build/lib/scitbx/math copying scitbx/math/euler_angles.py -> build/lib/scitbx/math copying scitbx/math/fit_quadratic_function.py -> build/lib/scitbx/math copying scitbx/math/superpose.py -> build/lib/scitbx/math copying scitbx/math/periodogram.py -> build/lib/scitbx/math copying scitbx/math/fliege_mayer_900.py -> build/lib/scitbx/math copying scitbx/math/multiple_superposition.py -> build/lib/scitbx/math copying scitbx/math/fliege_mayer_400.py -> build/lib/scitbx/math copying scitbx/math/ext.py -> build/lib/scitbx/math copying scitbx/math/tst_bessel_zeros.py -> build/lib/scitbx/math copying scitbx/math/gumbel.py -> build/lib/scitbx/math copying scitbx/math/besselk.py -> build/lib/scitbx/math copying scitbx/math/gaussian.py -> build/lib/scitbx/math copying scitbx/math/lefebvre.py -> build/lib/scitbx/math copying scitbx/math/fliege_mayer_900_ylm.py -> build/lib/scitbx/math copying scitbx/math/farey.py -> build/lib/scitbx/math creating build/lib/scitbx/sparse copying scitbx/sparse/__init__.py -> build/lib/scitbx/sparse creating build/lib/scitbx/glmtbx copying scitbx/glmtbx/__init__.py -> build/lib/scitbx/glmtbx creating build/lib/scitbx/source_generators copying scitbx/source_generators/lbfgs_fem.py -> build/lib/scitbx/source_generators copying scitbx/source_generators/flex_fwd_h.py -> build/lib/scitbx/source_generators copying scitbx/source_generators/__init__.py -> build/lib/scitbx/source_generators copying scitbx/source_generators/utils.py -> build/lib/scitbx/source_generators creating build/lib/scitbx/lstbx copying scitbx/lstbx/normal_eqns_solving.py -> build/lib/scitbx/lstbx copying scitbx/lstbx/__init__.py -> build/lib/scitbx/lstbx copying scitbx/lstbx/normal_eqns.py -> build/lib/scitbx/lstbx creating build/lib/scitbx/line_search copying scitbx/line_search/__init__.py -> build/lib/scitbx/line_search creating build/lib/scitbx/rigid_body copying scitbx/rigid_body/__init__.py -> build/lib/scitbx/rigid_body copying scitbx/rigid_body/tst.py -> build/lib/scitbx/rigid_body creating build/lib/scitbx/misc copying scitbx/misc/__init__.py -> build/lib/scitbx/misc creating build/lib/scitbx/boost_python copying scitbx/boost_python/__init__.py -> build/lib/scitbx/boost_python creating build/lib/scitbx/error copying scitbx/error/tst_error.py -> build/lib/scitbx/error copying scitbx/error/__init__.py -> build/lib/scitbx/error creating build/lib/scitbx/python_utils copying scitbx/python_utils/graph_tools.py -> build/lib/scitbx/python_utils copying scitbx/python_utils/random_transform.py -> build/lib/scitbx/python_utils copying scitbx/python_utils/tst_random_transform.py -> build/lib/scitbx/python_utils copying scitbx/python_utils/tst_robust.py -> build/lib/scitbx/python_utils copying scitbx/python_utils/dicts.py -> build/lib/scitbx/python_utils copying scitbx/python_utils/robust_statistics.py -> build/lib/scitbx/python_utils copying scitbx/python_utils/tst_graph.py -> build/lib/scitbx/python_utils copying scitbx/python_utils/__init__.py -> build/lib/scitbx/python_utils copying scitbx/python_utils/signal_utils.py -> build/lib/scitbx/python_utils copying scitbx/python_utils/command_line.py -> build/lib/scitbx/python_utils copying scitbx/python_utils/misc.py -> build/lib/scitbx/python_utils creating build/lib/scitbx/random copying scitbx/random/__init__.py -> build/lib/scitbx/random creating build/lib/scitbx/graphics_utils copying scitbx/graphics_utils/__init__.py -> build/lib/scitbx/graphics_utils copying scitbx/graphics_utils/tst.py -> build/lib/scitbx/graphics_utils creating build/lib/scitbx/examples/bevington copying scitbx/examples/bevington/silver.py -> build/lib/scitbx/examples/bevington copying scitbx/examples/bevington/__init__.py -> build/lib/scitbx/examples/bevington creating build/lib/scitbx/suffixtree/test copying scitbx/suffixtree/test/__init__.py -> build/lib/scitbx/suffixtree/test copying scitbx/suffixtree/test/tst_single.py -> build/lib/scitbx/suffixtree/test creating build/lib/scitbx/suffixtree/boost_python copying scitbx/suffixtree/boost_python/__init__.py -> build/lib/scitbx/suffixtree/boost_python creating build/lib/scitbx/lbfgs/dev copying scitbx/lbfgs/dev/__init__.py -> build/lib/scitbx/lbfgs/dev copying scitbx/lbfgs/dev/twisted_gaussian.py -> build/lib/scitbx/lbfgs/dev copying scitbx/lbfgs/dev/run.py -> build/lib/scitbx/lbfgs/dev creating build/lib/scitbx/matrix/tests copying scitbx/matrix/tests/tst_householder.py -> build/lib/scitbx/matrix/tests copying scitbx/matrix/tests/tst_row_echelon.py -> build/lib/scitbx/matrix/tests copying scitbx/matrix/tests/__init__.py -> build/lib/scitbx/matrix/tests creating build/lib/scitbx/linalg/tests copying scitbx/linalg/tests/tst_svd.py -> build/lib/scitbx/linalg/tests copying scitbx/linalg/tests/tst_matrix.py -> build/lib/scitbx/linalg/tests copying scitbx/linalg/tests/tst_lapack_dsyev.py -> build/lib/scitbx/linalg/tests copying scitbx/linalg/tests/tst_cholesky.py -> build/lib/scitbx/linalg/tests copying scitbx/linalg/tests/tst_lapack_svd.py -> build/lib/scitbx/linalg/tests copying scitbx/linalg/tests/tst_eigensystem.py -> build/lib/scitbx/linalg/tests copying scitbx/linalg/tests/__init__.py -> build/lib/scitbx/linalg/tests creating build/lib/scitbx/linalg/boost_python copying scitbx/linalg/boost_python/__init__.py -> build/lib/scitbx/linalg/boost_python creating build/lib/scitbx/dtmin/regression copying scitbx/dtmin/regression/tst_dtmin_twisted.py -> build/lib/scitbx/dtmin/regression copying scitbx/dtmin/regression/tst_dtmin_booth.py -> build/lib/scitbx/dtmin/regression copying scitbx/dtmin/regression/tst_dtmin_basic.py -> build/lib/scitbx/dtmin/regression copying scitbx/dtmin/regression/__init__.py -> build/lib/scitbx/dtmin/regression creating build/lib/scitbx/array_family/detail copying scitbx/array_family/detail/__init__.py -> build/lib/scitbx/array_family/detail creating build/lib/scitbx/array_family/accessors copying scitbx/array_family/accessors/__init__.py -> build/lib/scitbx/array_family/accessors creating build/lib/scitbx/array_family/boost_python copying scitbx/array_family/boost_python/tst_numpy_bridge.py -> build/lib/scitbx/array_family/boost_python copying scitbx/array_family/boost_python/tst_shared.py -> build/lib/scitbx/array_family/boost_python copying scitbx/array_family/boost_python/tst_cost_of_m_handle_in_af_shared.py -> build/lib/scitbx/array_family/boost_python copying scitbx/array_family/boost_python/tst_flex.py -> build/lib/scitbx/array_family/boost_python copying scitbx/array_family/boost_python/regression_test.py -> build/lib/scitbx/array_family/boost_python copying scitbx/array_family/boost_python/__init__.py -> build/lib/scitbx/array_family/boost_python copying scitbx/array_family/boost_python/tst_integer_offsets_vs_pointers.py -> build/lib/scitbx/array_family/boost_python copying scitbx/array_family/boost_python/tst_flex_argument_passing.py -> build/lib/scitbx/array_family/boost_python copying scitbx/array_family/boost_python/tst_smart_selection.py -> build/lib/scitbx/array_family/boost_python creating build/lib/scitbx/math/dev copying scitbx/math/dev/__init__.py -> build/lib/scitbx/math/dev creating build/lib/scitbx/math/tests copying scitbx/math/tests/tst_fit_peak.py -> build/lib/scitbx/math/tests copying scitbx/math/tests/tst_line_search.py -> build/lib/scitbx/math/tests copying scitbx/math/tests/tst_error_propagation_matrix_inverse.py -> build/lib/scitbx/math/tests copying scitbx/math/tests/tst_tetrahedron.py -> build/lib/scitbx/math/tests copying scitbx/math/tests/tst_resample.py -> build/lib/scitbx/math/tests copying scitbx/math/tests/tst_dmatrix.py -> build/lib/scitbx/math/tests copying scitbx/math/tests/tst_angle_derivative.py -> build/lib/scitbx/math/tests copying scitbx/math/tests/tst_math.py -> build/lib/scitbx/math/tests copying scitbx/math/tests/tst_exp_functions.py -> build/lib/scitbx/math/tests copying scitbx/math/tests/tst_euler_angles.py -> build/lib/scitbx/math/tests copying scitbx/math/tests/tst_orthonormal_basis.py -> build/lib/scitbx/math/tests copying scitbx/math/tests/tst_similarity_indices.py -> build/lib/scitbx/math/tests copying scitbx/math/tests/tst_gcd.py -> build/lib/scitbx/math/tests copying scitbx/math/tests/tst_g_function.py -> build/lib/scitbx/math/tests copying scitbx/math/tests/tst_weighted_correlation.py -> build/lib/scitbx/math/tests copying scitbx/math/tests/tst_gaussian.py -> build/lib/scitbx/math/tests copying scitbx/math/tests/tst_bessel.py -> build/lib/scitbx/math/tests copying scitbx/math/tests/tst_uniform_rotation_matrix.py -> build/lib/scitbx/math/tests copying scitbx/math/tests/tst_halton.py -> build/lib/scitbx/math/tests copying scitbx/math/tests/__init__.py -> build/lib/scitbx/math/tests copying scitbx/math/tests/tst_curve_fitting.py -> build/lib/scitbx/math/tests copying scitbx/math/tests/tst_gaussian_fit_1d_analytical.py -> build/lib/scitbx/math/tests copying scitbx/math/tests/tst_clustering.py -> build/lib/scitbx/math/tests copying scitbx/math/tests/tst_r3_rotation.py -> build/lib/scitbx/math/tests copying scitbx/math/tests/tst_quadrature.py -> build/lib/scitbx/math/tests copying scitbx/math/tests/tst_periodogram.py -> build/lib/scitbx/math/tests copying scitbx/math/tests/tst_minimum_covering_ellipsoid.py -> build/lib/scitbx/math/tests copying scitbx/math/tests/tst_cubic_equation.py -> build/lib/scitbx/math/tests copying scitbx/math/tests/tst_fit_quadratic_function.py -> build/lib/scitbx/math/tests copying scitbx/math/tests/tst_superpose.py -> build/lib/scitbx/math/tests creating build/lib/scitbx/math/boost_python copying scitbx/math/boost_python/__init__.py -> build/lib/scitbx/math/boost_python creating build/lib/scitbx/math/erf copying scitbx/math/erf/__init__.py -> build/lib/scitbx/math/erf creating build/lib/scitbx/sparse/tests copying scitbx/sparse/tests/tst_sparse.py -> build/lib/scitbx/sparse/tests copying scitbx/sparse/tests/tst_lu_factorization.py -> build/lib/scitbx/sparse/tests copying scitbx/sparse/tests/__init__.py -> build/lib/scitbx/sparse/tests creating build/lib/scitbx/sparse/boost_python copying scitbx/sparse/boost_python/__init__.py -> build/lib/scitbx/sparse/boost_python creating build/lib/scitbx/glmtbx/tests copying scitbx/glmtbx/tests/__init__.py -> build/lib/scitbx/glmtbx/tests copying scitbx/glmtbx/tests/tst.py -> build/lib/scitbx/glmtbx/tests creating build/lib/scitbx/glmtbx/boost_python copying scitbx/glmtbx/boost_python/__init__.py -> build/lib/scitbx/glmtbx/boost_python creating build/lib/scitbx/source_generators/array_family copying scitbx/source_generators/array_family/generate_reductions.py -> build/lib/scitbx/source_generators/array_family copying scitbx/source_generators/array_family/generate_std_imports.py -> build/lib/scitbx/source_generators/array_family copying scitbx/source_generators/array_family/generate_algebras.py -> build/lib/scitbx/source_generators/array_family copying scitbx/source_generators/array_family/__init__.py -> build/lib/scitbx/source_generators/array_family copying scitbx/source_generators/array_family/generate_operator_traits_builtin.py -> build/lib/scitbx/source_generators/array_family copying scitbx/source_generators/array_family/generate_operator_functors.py -> build/lib/scitbx/source_generators/array_family copying scitbx/source_generators/array_family/operator_functor_info.py -> build/lib/scitbx/source_generators/array_family copying scitbx/source_generators/array_family/generate_all.py -> build/lib/scitbx/source_generators/array_family copying scitbx/source_generators/array_family/generate_apply.py -> build/lib/scitbx/source_generators/array_family creating build/lib/scitbx/lstbx/tests copying scitbx/lstbx/tests/tst_normal_equations.py -> build/lib/scitbx/lstbx/tests copying scitbx/lstbx/tests/test_problems.py -> build/lib/scitbx/lstbx/tests copying scitbx/lstbx/tests/__init__.py -> build/lib/scitbx/lstbx/tests creating build/lib/scitbx/lstbx/benchmarks copying scitbx/lstbx/benchmarks/__init__.py -> build/lib/scitbx/lstbx/benchmarks creating build/lib/scitbx/lstbx/boost_python copying scitbx/lstbx/boost_python/__init__.py -> build/lib/scitbx/lstbx/boost_python creating build/lib/scitbx/rigid_body/proto copying scitbx/rigid_body/proto/tst_featherstone.py -> build/lib/scitbx/rigid_body/proto copying scitbx/rigid_body/proto/test_utils.py -> build/lib/scitbx/rigid_body/proto copying scitbx/rigid_body/proto/tst_joint_lib.py -> build/lib/scitbx/rigid_body/proto copying scitbx/rigid_body/proto/wx_free_motion.py -> build/lib/scitbx/rigid_body/proto copying scitbx/rigid_body/proto/tst_free_motion.py -> build/lib/scitbx/rigid_body/proto copying scitbx/rigid_body/proto/free_motion_reference_impl.py -> build/lib/scitbx/rigid_body/proto copying scitbx/rigid_body/proto/joint_lib.py -> build/lib/scitbx/rigid_body/proto copying scitbx/rigid_body/proto/tst_free_motion_hard.py -> build/lib/scitbx/rigid_body/proto copying scitbx/rigid_body/proto/wx_joint_lib.py -> build/lib/scitbx/rigid_body/proto copying scitbx/rigid_body/proto/tst_molecules.py -> build/lib/scitbx/rigid_body/proto copying scitbx/rigid_body/proto/__init__.py -> build/lib/scitbx/rigid_body/proto copying scitbx/rigid_body/proto/featherstone.py -> build/lib/scitbx/rigid_body/proto copying scitbx/rigid_body/proto/wx_molecules.py -> build/lib/scitbx/rigid_body/proto copying scitbx/rigid_body/proto/tst_spherical_refinement.py -> build/lib/scitbx/rigid_body/proto copying scitbx/rigid_body/proto/tst_singular.py -> build/lib/scitbx/rigid_body/proto copying scitbx/rigid_body/proto/test_simulation.py -> build/lib/scitbx/rigid_body/proto copying scitbx/rigid_body/proto/utils.py -> build/lib/scitbx/rigid_body/proto creating build/lib/scitbx/rigid_body/essence copying scitbx/rigid_body/essence/tst_basic.py -> build/lib/scitbx/rigid_body/essence copying scitbx/rigid_body/essence/tst_tardy.py -> build/lib/scitbx/rigid_body/essence copying scitbx/rigid_body/essence/spatial_lib.py -> build/lib/scitbx/rigid_body/essence copying scitbx/rigid_body/essence/joint_lib.py -> build/lib/scitbx/rigid_body/essence copying scitbx/rigid_body/essence/__init__.py -> build/lib/scitbx/rigid_body/essence copying scitbx/rigid_body/essence/featherstone.py -> build/lib/scitbx/rigid_body/essence copying scitbx/rigid_body/essence/body_lib.py -> build/lib/scitbx/rigid_body/essence copying scitbx/rigid_body/essence/make_bundles.py -> build/lib/scitbx/rigid_body/essence copying scitbx/rigid_body/essence/tst_energy_plots.py -> build/lib/scitbx/rigid_body/essence copying scitbx/rigid_body/essence/wx_tardy.py -> build/lib/scitbx/rigid_body/essence copying scitbx/rigid_body/essence/tardy.py -> build/lib/scitbx/rigid_body/essence creating build/lib/scitbx/random/tests copying scitbx/random/tests/__init__.py -> build/lib/scitbx/random/tests copying scitbx/random/tests/tst_random.py -> build/lib/scitbx/random/tests creating build/lib/scitbx/random/boost_python copying scitbx/random/boost_python/__init__.py -> build/lib/scitbx/random/boost_python creating build/lib/cctbx/command_line copying cctbx/command_line/form_factor_query.py -> build/lib/cctbx/command_line copying cctbx/command_line/cctbx_test_nightly.py -> build/lib/cctbx/command_line copying cctbx/command_line/cod_select_and_pickle.py -> build/lib/cctbx/command_line copying cctbx/command_line/samosa_join.py -> build/lib/cctbx/command_line copying cctbx/command_line/samosa_scale.py -> build/lib/cctbx/command_line copying cctbx/command_line/euclidean_model_matching.py -> build/lib/cctbx/command_line copying cctbx/command_line/eltbx.show_fp_fdp.py -> build/lib/cctbx/command_line copying cctbx/command_line/diffuse.py -> build/lib/cctbx/command_line copying cctbx/command_line/brehm_diederichs.py -> build/lib/cctbx/command_line copying cctbx/command_line/precession_view.py -> build/lib/cctbx/command_line copying cctbx/command_line/space_group_info.py -> build/lib/cctbx/command_line copying cctbx/command_line/qscore.py -> build/lib/cctbx/command_line copying cctbx/command_line/segment_and_split_map.py -> build/lib/cctbx/command_line copying cctbx/command_line/__init__.py -> build/lib/cctbx/command_line copying cctbx/command_line/auto_sharpen.py -> build/lib/cctbx/command_line copying cctbx/command_line/subgroups.py -> build/lib/cctbx/command_line copying cctbx/command_line/find_reticular_twin_laws.py -> build/lib/cctbx/command_line copying cctbx/command_line/structure_factor_timings.py -> build/lib/cctbx/command_line copying cctbx/command_line/wavelength_units.py -> build/lib/cctbx/command_line copying cctbx/command_line/version.py -> build/lib/cctbx/command_line creating build/lib/cctbx/adp_restraints copying cctbx/adp_restraints/energies.py -> build/lib/cctbx/adp_restraints copying cctbx/adp_restraints/flags.py -> build/lib/cctbx/adp_restraints copying cctbx/adp_restraints/__init__.py -> build/lib/cctbx/adp_restraints copying cctbx/adp_restraints/tst_ext.py -> build/lib/cctbx/adp_restraints creating build/lib/cctbx/examples copying cctbx/examples/site_symmetry_table.py -> build/lib/cctbx/examples copying cctbx/examples/tst_structure_factor_derivatives_4.py -> build/lib/cctbx/examples copying cctbx/examples/phase_o_phrenia.py -> build/lib/cctbx/examples copying cctbx/examples/unit_cell_minimizers.py -> build/lib/cctbx/examples copying cctbx/examples/lebedev_2005_perturbation.py -> build/lib/cctbx/examples copying cctbx/examples/miller_transform.py -> build/lib/cctbx/examples copying cctbx/examples/tst_structure_factor_derivatives_2.py -> build/lib/cctbx/examples copying cctbx/examples/hirshfeld_test.py -> build/lib/cctbx/examples copying cctbx/examples/g_exp_i_partial_derivatives.py -> build/lib/cctbx/examples copying cctbx/examples/structure_factor_derivatives_4.py -> build/lib/cctbx/examples copying cctbx/examples/structure_factor_derivatives_2.py -> build/lib/cctbx/examples copying cctbx/examples/symops_530.py -> build/lib/cctbx/examples copying cctbx/examples/exp_i_alpha_derivatives.py -> build/lib/cctbx/examples copying cctbx/examples/analyze_adp.py -> build/lib/cctbx/examples copying cctbx/examples/space_group_matrices.py -> build/lib/cctbx/examples copying cctbx/examples/list_non_principal_continuous_shifts.py -> build/lib/cctbx/examples copying cctbx/examples/structure_factor_derivatives_3.py -> build/lib/cctbx/examples copying cctbx/examples/le_page_1982_vs_lebedev_2005.py -> build/lib/cctbx/examples copying cctbx/examples/sub_group_graph.py -> build/lib/cctbx/examples copying cctbx/examples/getting_started.py -> build/lib/cctbx/examples copying cctbx/examples/cr2o3_consistency_checks.py -> build/lib/cctbx/examples copying cctbx/examples/convert_ccp4_symop_lib.py -> build/lib/cctbx/examples copying cctbx/examples/fft_map_electron_density_around_atom.py -> build/lib/cctbx/examples copying cctbx/examples/find_distances_using_cpp_objects.py -> build/lib/cctbx/examples copying cctbx/examples/space_subgroups.py -> build/lib/cctbx/examples copying cctbx/examples/reduced_cell_two_folds.py -> build/lib/cctbx/examples copying cctbx/examples/tst_structure_factor_derivatives.py -> build/lib/cctbx/examples copying cctbx/examples/location_part.py -> build/lib/cctbx/examples copying cctbx/examples/random_puckers.py -> build/lib/cctbx/examples copying cctbx/examples/tst_exp_i_alpha_derivatives.py -> build/lib/cctbx/examples copying cctbx/examples/find_sys_abs_equiv_space_groups.py -> build/lib/cctbx/examples copying cctbx/examples/g_exp_i_alpha_derivatives.py -> build/lib/cctbx/examples copying cctbx/examples/unit_cell_refinement.py -> build/lib/cctbx/examples copying cctbx/examples/neutron_structure_factors.py -> build/lib/cctbx/examples copying cctbx/examples/trigonal_r_vs_tetragonal_i.py -> build/lib/cctbx/examples copying cctbx/examples/tst_space_subgroups.py -> build/lib/cctbx/examples copying cctbx/examples/tst_g_exp_i_alpha_derivatives.py -> build/lib/cctbx/examples copying cctbx/examples/maximum_subgroups.py -> build/lib/cctbx/examples copying cctbx/examples/miller_common_sets.py -> build/lib/cctbx/examples copying cctbx/examples/structure_factor_derivatives.py -> build/lib/cctbx/examples copying cctbx/examples/f_model_example.py -> build/lib/cctbx/examples copying cctbx/examples/__init__.py -> build/lib/cctbx/examples copying cctbx/examples/adp_symmetry_constraints.py -> build/lib/cctbx/examples copying cctbx/examples/map_skewness.py -> build/lib/cctbx/examples copying cctbx/examples/change_hand_p31.py -> build/lib/cctbx/examples copying cctbx/examples/quartz_structure.py -> build/lib/cctbx/examples copying cctbx/examples/site_symmetry_constraints.py -> build/lib/cctbx/examples copying cctbx/examples/cr2o3_primitive_cell.py -> build/lib/cctbx/examples copying cctbx/examples/tst_structure_factor_derivatives_3.py -> build/lib/cctbx/examples copying cctbx/examples/steve_collins.py -> build/lib/cctbx/examples copying cctbx/examples/all_axes.py -> build/lib/cctbx/examples copying cctbx/examples/ccp4_map.py -> build/lib/cctbx/examples copying cctbx/examples/tst_phase_o_phrenia.py -> build/lib/cctbx/examples copying cctbx/examples/random_f_calc.py -> build/lib/cctbx/examples copying cctbx/examples/view_fft_map.py -> build/lib/cctbx/examples creating build/lib/cctbx/development copying cctbx/development/github.py -> build/lib/cctbx/development copying cctbx/development/fmt_utils.py -> build/lib/cctbx/development copying cctbx/development/create_models_or_maps.py -> build/lib/cctbx/development copying cctbx/development/cns_density_modification.py -> build/lib/cctbx/development copying cctbx/development/direct_or_fft.py -> build/lib/cctbx/development copying cctbx/development/space_group_option_parser.py -> build/lib/cctbx/development copying cctbx/development/electron_density_sampling.py -> build/lib/cctbx/development copying cctbx/development/run_shelx.py -> build/lib/cctbx/development copying cctbx/development/approx_amplitude_vs_resolution.py -> build/lib/cctbx/development copying cctbx/development/random_structure.py -> build/lib/cctbx/development copying cctbx/development/tst_cns_epsilon.py -> build/lib/cctbx/development copying cctbx/development/tst_cns_hl.py -> build/lib/cctbx/development copying cctbx/development/__init__.py -> build/lib/cctbx/development copying cctbx/development/make_cns_input.py -> build/lib/cctbx/development copying cctbx/development/make_settings.py -> build/lib/cctbx/development copying cctbx/development/structure_factor_utils.py -> build/lib/cctbx/development copying cctbx/development/run_shelx76.py -> build/lib/cctbx/development copying cctbx/development/debug_utils.py -> build/lib/cctbx/development creating build/lib/cctbx/masks copying cctbx/masks/__init__.py -> build/lib/cctbx/masks creating build/lib/cctbx/geometry copying cctbx/geometry/__init__.py -> build/lib/cctbx/geometry creating build/lib/cctbx/array_family copying cctbx/array_family/flex.py -> build/lib/cctbx/array_family copying cctbx/array_family/__init__.py -> build/lib/cctbx/array_family creating build/lib/cctbx/covariance copying cctbx/covariance/__init__.py -> build/lib/cctbx/covariance creating build/lib/cctbx/crystal copying cctbx/crystal/find_best_cell.py -> build/lib/cctbx/crystal copying cctbx/crystal/super_cell.py -> build/lib/cctbx/crystal copying cctbx/crystal/tst_distance_based_connectivity.py -> build/lib/cctbx/crystal copying cctbx/crystal/tst_super_cell.py -> build/lib/cctbx/crystal copying cctbx/crystal/direct_space_asu.py -> build/lib/cctbx/crystal copying cctbx/crystal/reindex.py -> build/lib/cctbx/crystal copying cctbx/crystal/__init__.py -> build/lib/cctbx/crystal copying cctbx/crystal/coordination_sequences.py -> build/lib/cctbx/crystal copying cctbx/crystal/burzlaff_zimmermann_dewolff.py -> build/lib/cctbx/crystal copying cctbx/crystal/distance_based_connectivity.py -> build/lib/cctbx/crystal copying cctbx/crystal/close_packing.py -> build/lib/cctbx/crystal copying cctbx/crystal/tst_ext.py -> build/lib/cctbx/crystal creating build/lib/cctbx/source_generators copying cctbx/source_generators/flex_fwd_h.py -> build/lib/cctbx/source_generators copying cctbx/source_generators/__init__.py -> build/lib/cctbx/source_generators creating build/lib/cctbx/regression copying cctbx/regression/tst_mem_2.py -> build/lib/cctbx/regression copying cctbx/regression/tst_maptbx_box.py -> build/lib/cctbx/regression copying cctbx/regression/tst_refine_xray_curvs.py -> build/lib/cctbx/regression copying cctbx/regression/tst_sgtbx_special_op_simplifier.py -> build/lib/cctbx/regression copying cctbx/regression/tst_reflection_statistics.py -> build/lib/cctbx/regression copying cctbx/regression/tst_french_wilson.py -> build/lib/cctbx/regression copying cctbx/regression/tst_miller_statistics.py -> build/lib/cctbx/regression copying cctbx/regression/tst_triplet_generator.py -> build/lib/cctbx/regression copying cctbx/regression/tst_sgtbx.py -> build/lib/cctbx/regression copying cctbx/regression/tst_show_cosets.py -> build/lib/cctbx/regression copying cctbx/regression/tst_fast_nv1995.py -> build/lib/cctbx/regression copying cctbx/regression/tst_xray_minimization.py -> build/lib/cctbx/regression copying cctbx/regression/tst_sgtbx_lattice_symmetry.py -> build/lib/cctbx/regression copying cctbx/regression/tst_sgtbx_subgroups.py -> build/lib/cctbx/regression copying cctbx/regression/tst_maptbx_structure_factors.py -> build/lib/cctbx/regression copying cctbx/regression/tst_loc_res.py -> build/lib/cctbx/regression copying cctbx/regression/tst_weighting_schemes.py -> build/lib/cctbx/regression copying cctbx/regression/tst_sampled_model_density.py -> build/lib/cctbx/regression copying cctbx/regression/tst_wavelength_units.py -> build/lib/cctbx/regression copying cctbx/regression/tst_r_free_utils.py -> build/lib/cctbx/regression copying cctbx/regression/tst_miller_merge_equivalents.py -> build/lib/cctbx/regression copying cctbx/regression/tst_geometry_restraints.py -> build/lib/cctbx/regression copying cctbx/regression/tst_create_models_or_maps.py -> build/lib/cctbx/regression copying cctbx/regression/tst_crystal.py -> build/lib/cctbx/regression copying cctbx/regression/tst_coordination_sequences.py -> build/lib/cctbx/regression copying cctbx/regression/tst_change_basis.py -> build/lib/cctbx/regression copying cctbx/regression/tst_amplitude_normalisation.py -> build/lib/cctbx/regression copying cctbx/regression/tst_mem.py -> build/lib/cctbx/regression copying cctbx/regression/tst_miller.py -> build/lib/cctbx/regression copying cctbx/regression/tst_itvb_2001_table_a1427_hall_symbols.py -> build/lib/cctbx/regression copying cctbx/regression/tst_twin_target.py -> build/lib/cctbx/regression copying cctbx/regression/tst_geometry_restraints_2.py -> build/lib/cctbx/regression copying cctbx/regression/tst_crystal_asu_clusters.py -> build/lib/cctbx/regression copying cctbx/regression/tst_miller_data_manipulation.py -> build/lib/cctbx/regression copying cctbx/regression/tst_grm_modifications.py -> build/lib/cctbx/regression copying cctbx/regression/tst_grouped_data.py -> build/lib/cctbx/regression copying cctbx/regression/tst_f_model.py -> build/lib/cctbx/regression copying cctbx/regression/tst_adp_aniso_restraints.py -> build/lib/cctbx/regression copying cctbx/regression/tst_krivy_gruber.py -> build/lib/cctbx/regression copying cctbx/regression/tst_wilson_plot.py -> build/lib/cctbx/regression copying cctbx/regression/tst_xray_fast_gradients.py -> build/lib/cctbx/regression copying cctbx/regression/tst_pair_asu_table.py -> build/lib/cctbx/regression copying cctbx/regression/tst_space_group_type_tidy_cb_op_t.py -> build/lib/cctbx/regression copying cctbx/regression/tst_xray_minimization_failure.py -> build/lib/cctbx/regression copying cctbx/regression/tst_diffuse.py -> build/lib/cctbx/regression copying cctbx/regression/tst_statistics_graphs.py -> build/lib/cctbx/regression copying cctbx/regression/tst_crystal_close_packing.py -> build/lib/cctbx/regression copying cctbx/regression/tst_geometry_restraints_lbfgs.py -> build/lib/cctbx/regression copying cctbx/regression/tst_map_weights_for_symmetry_summation.py -> build/lib/cctbx/regression copying cctbx/regression/tst_adp_constraints.py -> build/lib/cctbx/regression copying cctbx/regression/tst_direct_scaling.py -> build/lib/cctbx/regression copying cctbx/regression/tst_adp_constraints_cartesian.py -> build/lib/cctbx/regression copying cctbx/regression/tst_fourier_transform_real_part_at_x.py -> build/lib/cctbx/regression copying cctbx/regression/tst_map_is_periodic.py -> build/lib/cctbx/regression copying cctbx/regression/tst_reciprocal_space_asu.py -> build/lib/cctbx/regression copying cctbx/regression/tst_pointgroup_tools.py -> build/lib/cctbx/regression copying cctbx/regression/tst_sphericity.py -> build/lib/cctbx/regression copying cctbx/regression/tst_grm_pickling.py -> build/lib/cctbx/regression copying cctbx/regression/tst_xray_derivatives.py -> build/lib/cctbx/regression copying cctbx/regression/tst_grm_modifications_rm.py -> build/lib/cctbx/regression copying cctbx/regression/__init__.py -> build/lib/cctbx/regression copying cctbx/regression/tst_miller_fft_map.py -> build/lib/cctbx/regression copying cctbx/regression/tst_find_best_cell.py -> build/lib/cctbx/regression copying cctbx/regression/tst_sf_low_res_accuracy.py -> build/lib/cctbx/regression copying cctbx/regression/tst_sgtbx_harker.py -> build/lib/cctbx/regression copying cctbx/regression/tst_miller_double_step_filtration.py -> build/lib/cctbx/regression copying cctbx/regression/tst_connectivity.py -> build/lib/cctbx/regression copying cctbx/regression/tst_maptbx_mask.py -> build/lib/cctbx/regression copying cctbx/regression/tst_emma.py -> build/lib/cctbx/regression copying cctbx/regression/tst_sgtbx_site_constraints.py -> build/lib/cctbx/regression copying cctbx/regression/tst_expand_to_p1.py -> build/lib/cctbx/regression copying cctbx/regression/tst_niggli_reduction_cpp.py -> build/lib/cctbx/regression copying cctbx/regression/tst_sgtbx_tidy_pickling.py -> build/lib/cctbx/regression copying cctbx/regression/tst_web_change_basis.py -> build/lib/cctbx/regression copying cctbx/regression/tst_fcalc_fft_stability.py -> build/lib/cctbx/regression copying cctbx/regression/tst_prepare_map_for_docking.py -> build/lib/cctbx/regression copying cctbx/regression/tst_connectivity_allsym.py -> build/lib/cctbx/regression copying cctbx/regression/tst_sgtbx_denominators.py -> build/lib/cctbx/regression copying cctbx/regression/tst_miller_lookup_utils.py -> build/lib/cctbx/regression copying cctbx/regression/tst_direct_space_asu.py -> build/lib/cctbx/regression copying cctbx/regression/tst_math_module.py -> build/lib/cctbx/regression copying cctbx/regression/tst_xray_target_functors.py -> build/lib/cctbx/regression copying cctbx/regression/tst_xray.py -> build/lib/cctbx/regression creating build/lib/cctbx/geometry_restraints copying cctbx/geometry_restraints/base_geometry.py -> build/lib/cctbx/geometry_restraints copying cctbx/geometry_restraints/tst_process_nonbonded_proxies.py -> build/lib/cctbx/geometry_restraints copying cctbx/geometry_restraints/process_nonbonded_proxies.py -> build/lib/cctbx/geometry_restraints copying cctbx/geometry_restraints/energies.py -> build/lib/cctbx/geometry_restraints copying cctbx/geometry_restraints/tst_motif.py -> build/lib/cctbx/geometry_restraints copying cctbx/geometry_restraints/manager.py -> build/lib/cctbx/geometry_restraints copying cctbx/geometry_restraints/standard_cif_links.py -> build/lib/cctbx/geometry_restraints copying cctbx/geometry_restraints/lbfgs.py -> build/lib/cctbx/geometry_restraints copying cctbx/geometry_restraints/linking_class.py -> build/lib/cctbx/geometry_restraints copying cctbx/geometry_restraints/flags.py -> build/lib/cctbx/geometry_restraints copying cctbx/geometry_restraints/__init__.py -> build/lib/cctbx/geometry_restraints copying cctbx/geometry_restraints/tst_angle_derivs.py -> build/lib/cctbx/geometry_restraints copying cctbx/geometry_restraints/auto_linking_types.py -> build/lib/cctbx/geometry_restraints copying cctbx/geometry_restraints/tst_proxy_registry.py -> build/lib/cctbx/geometry_restraints copying cctbx/geometry_restraints/tst_ext.py -> build/lib/cctbx/geometry_restraints copying cctbx/geometry_restraints/distance_least_squares.py -> build/lib/cctbx/geometry_restraints creating build/lib/cctbx/omz copying cctbx/omz/cod_refine.py -> build/lib/cctbx/omz copying cctbx/omz/cod_select_and_pickle.py -> build/lib/cctbx/omz copying cctbx/omz/eval_iso_vs_refined.py -> build/lib/cctbx/omz copying cctbx/omz/pdb_dev.py -> build/lib/cctbx/omz copying cctbx/omz/tst_dev.py -> build/lib/cctbx/omz copying cctbx/omz/bfgs.py -> build/lib/cctbx/omz copying cctbx/omz/cif_refine.py -> build/lib/cctbx/omz copying cctbx/omz/dev.py -> build/lib/cctbx/omz copying cctbx/omz/tst_bfgs.py -> build/lib/cctbx/omz copying cctbx/omz/__init__.py -> build/lib/cctbx/omz copying cctbx/omz/tardy_adaptor.py -> build/lib/cctbx/omz creating build/lib/cctbx/neutron copying cctbx/neutron/__init__.py -> build/lib/cctbx/neutron creating build/lib/cctbx/merging copying cctbx/merging/brehm_diederichs.py -> build/lib/cctbx/merging copying cctbx/merging/__init__.py -> build/lib/cctbx/merging creating build/lib/cctbx/uctbx copying cctbx/uctbx/reduction_base.py -> build/lib/cctbx/uctbx copying cctbx/uctbx/gruber_1973.py -> build/lib/cctbx/uctbx copying cctbx/uctbx/gruber_1973_table_1.py -> build/lib/cctbx/uctbx copying cctbx/uctbx/__init__.py -> build/lib/cctbx/uctbx copying cctbx/uctbx/krivy_gruber_1976.py -> build/lib/cctbx/uctbx creating build/lib/cctbx/miller copying cctbx/miller/tst_map_to_asu_isym.py -> build/lib/cctbx/miller copying cctbx/miller/reindexing.py -> build/lib/cctbx/miller copying cctbx/miller/display.py -> build/lib/cctbx/miller copying cctbx/miller/__init__.py -> build/lib/cctbx/miller copying cctbx/miller/tst_reindexing.py -> build/lib/cctbx/miller creating build/lib/cctbx/macro_mol copying cctbx/macro_mol/rotation_parameters.py -> build/lib/cctbx/macro_mol copying cctbx/macro_mol/__init__.py -> build/lib/cctbx/macro_mol creating build/lib/cctbx/maptbx copying cctbx/maptbx/resolution_from_map_and_model.py -> build/lib/cctbx/maptbx copying cctbx/maptbx/tst_mask.py -> build/lib/cctbx/maptbx copying cctbx/maptbx/tst_atom_curves.py -> build/lib/cctbx/maptbx copying cctbx/maptbx/tst_loft.py -> build/lib/cctbx/maptbx copying cctbx/maptbx/tst_atom_radius_as_central_peak_width.py -> build/lib/cctbx/maptbx copying cctbx/maptbx/prepare_map_for_docking.py -> build/lib/cctbx/maptbx copying cctbx/maptbx/mask.py -> build/lib/cctbx/maptbx copying cctbx/maptbx/tst_target_and_gradients.py -> build/lib/cctbx/maptbx copying cctbx/maptbx/tst_peak_volume_estimate.py -> build/lib/cctbx/maptbx copying cctbx/maptbx/tst_map_peak_3d_as_2d.py -> build/lib/cctbx/maptbx copying cctbx/maptbx/minimization.py -> build/lib/cctbx/maptbx copying cctbx/maptbx/map_symmetry.py -> build/lib/cctbx/maptbx copying cctbx/maptbx/tst_real_space_refinement_simple.py -> build/lib/cctbx/maptbx copying cctbx/maptbx/tst_interpolation_2.py -> build/lib/cctbx/maptbx copying cctbx/maptbx/mem.py -> build/lib/cctbx/maptbx copying cctbx/maptbx/prepare_map_for_refinement.py -> build/lib/cctbx/maptbx copying cctbx/maptbx/refine_sharpening.py -> build/lib/cctbx/maptbx copying cctbx/maptbx/tst_resolution_from_map_and_model.py -> build/lib/cctbx/maptbx copying cctbx/maptbx/qscore.py -> build/lib/cctbx/maptbx copying cctbx/maptbx/tst_asymmetric_map.py -> build/lib/cctbx/maptbx copying cctbx/maptbx/segment_and_split_map.py -> build/lib/cctbx/maptbx copying cctbx/maptbx/tst_ccp.py -> build/lib/cctbx/maptbx copying cctbx/maptbx/box.py -> build/lib/cctbx/maptbx copying cctbx/maptbx/__init__.py -> build/lib/cctbx/maptbx copying cctbx/maptbx/auto_sharpen.py -> build/lib/cctbx/maptbx copying cctbx/maptbx/tst_bcr.py -> build/lib/cctbx/maptbx copying cctbx/maptbx/fsc_curve.py -> build/lib/cctbx/maptbx copying cctbx/maptbx/refine_scales_errors.py -> build/lib/cctbx/maptbx copying cctbx/maptbx/real_space_refinement_simple.py -> build/lib/cctbx/maptbx copying cctbx/maptbx/tst_interpolation.py -> build/lib/cctbx/maptbx copying cctbx/maptbx/tst_qscore.py -> build/lib/cctbx/maptbx copying cctbx/maptbx/tst_get_percentile_cutoffs.py -> build/lib/cctbx/maptbx creating build/lib/cctbx/web copying cctbx/web/phase_o_phrenia.py -> build/lib/cctbx/web copying cctbx/web/change_hand.py -> build/lib/cctbx/web copying cctbx/web/replay.py -> build/lib/cctbx/web copying cctbx/web/cgi_utils.py -> build/lib/cctbx/web copying cctbx/web/iotbx_cif_validate.py -> build/lib/cctbx/web copying cctbx/web/structure_factors_pdb.py -> build/lib/cctbx/web copying cctbx/web/frac_cart.py -> build/lib/cctbx/web copying cctbx/web/explore_symmetry.py -> build/lib/cctbx/web copying cctbx/web/lattice_symmetry.py -> build/lib/cctbx/web copying cctbx/web/structure_factors.py -> build/lib/cctbx/web copying cctbx/web/shelx.py -> build/lib/cctbx/web copying cctbx/web/browse_settings.py -> build/lib/cctbx/web copying cctbx/web/multiple_cell.py -> build/lib/cctbx/web copying cctbx/web/change_setting.py -> build/lib/cctbx/web copying cctbx/web/__init__.py -> build/lib/cctbx/web copying cctbx/web/libtbx_help.py -> build/lib/cctbx/web copying cctbx/web/change_basis.py -> build/lib/cctbx/web copying cctbx/web/dispatcher.py -> build/lib/cctbx/web copying cctbx/web/all_axes.py -> build/lib/cctbx/web copying cctbx/web/emma.py -> build/lib/cctbx/web copying cctbx/web/wyckoff.py -> build/lib/cctbx/web copying cctbx/web/io_utils.py -> build/lib/cctbx/web creating build/lib/cctbx/sgtbx copying cctbx/sgtbx/plane_groups.py -> build/lib/cctbx/sgtbx copying cctbx/sgtbx/harker.py -> build/lib/cctbx/sgtbx copying cctbx/sgtbx/show_cosets.py -> build/lib/cctbx/sgtbx copying cctbx/sgtbx/lattice_symmetry.py -> build/lib/cctbx/sgtbx copying cctbx/sgtbx/symbol_confidence.py -> build/lib/cctbx/sgtbx copying cctbx/sgtbx/reticular_twin_laws.py -> build/lib/cctbx/sgtbx copying cctbx/sgtbx/sub_lattice_tools.py -> build/lib/cctbx/sgtbx copying cctbx/sgtbx/sys_abs_equiv.py -> build/lib/cctbx/sgtbx copying cctbx/sgtbx/bravais_types.py -> build/lib/cctbx/sgtbx copying cctbx/sgtbx/__init__.py -> build/lib/cctbx/sgtbx copying cctbx/sgtbx/literal_description.py -> build/lib/cctbx/sgtbx copying cctbx/sgtbx/subgroups.py -> build/lib/cctbx/sgtbx copying cctbx/sgtbx/rational_matrices_point_groups.py -> build/lib/cctbx/sgtbx copying cctbx/sgtbx/reticular_pg_tools.py -> build/lib/cctbx/sgtbx copying cctbx/sgtbx/pointgroup_tools.py -> build/lib/cctbx/sgtbx copying cctbx/sgtbx/cosets.py -> build/lib/cctbx/sgtbx creating build/lib/cctbx/xray copying cctbx/xray/minimization.py -> build/lib/cctbx/xray copying cctbx/xray/weighting_schemes.py -> build/lib/cctbx/xray copying cctbx/xray/target_functors.py -> build/lib/cctbx/xray copying cctbx/xray/__init__.py -> build/lib/cctbx/xray copying cctbx/xray/observation_types.py -> build/lib/cctbx/xray copying cctbx/xray/structure.py -> build/lib/cctbx/xray copying cctbx/xray/ext.py -> build/lib/cctbx/xray copying cctbx/xray/scatterer.py -> build/lib/cctbx/xray creating build/lib/cctbx/eltbx copying cctbx/eltbx/gaussian_fit.py -> build/lib/cctbx/eltbx copying cctbx/eltbx/neutron.py -> build/lib/cctbx/eltbx copying cctbx/eltbx/covalent_radii.py -> build/lib/cctbx/eltbx copying cctbx/eltbx/formula.py -> build/lib/cctbx/eltbx copying cctbx/eltbx/icsd_radii.py -> build/lib/cctbx/eltbx copying cctbx/eltbx/wavelengths.py -> build/lib/cctbx/eltbx copying cctbx/eltbx/chemical_elements.py -> build/lib/cctbx/eltbx copying cctbx/eltbx/attenuation_coefficient.py -> build/lib/cctbx/eltbx copying cctbx/eltbx/fp_fdp.py -> build/lib/cctbx/eltbx copying cctbx/eltbx/henke.py -> build/lib/cctbx/eltbx copying cctbx/eltbx/tiny_pse.py -> build/lib/cctbx/eltbx copying cctbx/eltbx/e_scattering.py -> build/lib/cctbx/eltbx copying cctbx/eltbx/__init__.py -> build/lib/cctbx/eltbx copying cctbx/eltbx/sasaki.py -> build/lib/cctbx/eltbx copying cctbx/eltbx/distance_based_connectivity.py -> build/lib/cctbx/eltbx copying cctbx/eltbx/van_der_waals_radii.py -> build/lib/cctbx/eltbx copying cctbx/eltbx/read_custom_scattering_dict.py -> build/lib/cctbx/eltbx creating build/lib/cctbx/examples/structure_factor_calculus copying cctbx/examples/structure_factor_calculus/site_derivatives.py -> build/lib/cctbx/examples/structure_factor_calculus copying cctbx/examples/structure_factor_calculus/sites_derivatives.py -> build/lib/cctbx/examples/structure_factor_calculus copying cctbx/examples/structure_factor_calculus/u_star_derivatives.py -> build/lib/cctbx/examples/structure_factor_calculus copying cctbx/examples/structure_factor_calculus/sites_least_squares_derivatives.py -> build/lib/cctbx/examples/structure_factor_calculus copying cctbx/examples/structure_factor_calculus/__init__.py -> build/lib/cctbx/examples/structure_factor_calculus creating build/lib/cctbx/examples/merging copying cctbx/examples/merging/data_utilities.py -> build/lib/cctbx/examples/merging copying cctbx/examples/merging/show_results.py -> build/lib/cctbx/examples/merging copying cctbx/examples/merging/sigma_correction.py -> build/lib/cctbx/examples/merging copying cctbx/examples/merging/test_cc_half.py -> build/lib/cctbx/examples/merging copying cctbx/examples/merging/data_subset.py -> build/lib/cctbx/examples/merging copying cctbx/examples/merging/__init__.py -> build/lib/cctbx/examples/merging copying cctbx/examples/merging/tst_permutations.py -> build/lib/cctbx/examples/merging copying cctbx/examples/merging/test_levenberg_sparse.py -> build/lib/cctbx/examples/merging copying cctbx/examples/merging/task4.py -> build/lib/cctbx/examples/merging copying cctbx/examples/merging/test1.py -> build/lib/cctbx/examples/merging creating build/lib/cctbx/examples/merging/samosa copying cctbx/examples/merging/samosa/scale.py -> build/lib/cctbx/examples/merging/samosa copying cctbx/examples/merging/samosa/__init__.py -> build/lib/cctbx/examples/merging/samosa copying cctbx/examples/merging/samosa/per_lattice_postrefinement.py -> build/lib/cctbx/examples/merging/samosa copying cctbx/examples/merging/samosa/join.py -> build/lib/cctbx/examples/merging/samosa creating build/lib/cctbx/source_generators/eltbx copying cctbx/source_generators/eltbx/generate_henke_cpp.py -> build/lib/cctbx/source_generators/eltbx copying cctbx/source_generators/eltbx/__init__.py -> build/lib/cctbx/source_generators/eltbx copying cctbx/source_generators/eltbx/generate_sasaki_cpp.py -> build/lib/cctbx/source_generators/eltbx creating build/lib/cctbx/uctbx/determine_unit_cell copying cctbx/uctbx/determine_unit_cell/__init__.py -> build/lib/cctbx/uctbx/determine_unit_cell creating build/lib/cctbx/maptbx/bcr copying cctbx/maptbx/bcr/bcr.py -> build/lib/cctbx/maptbx/bcr copying cctbx/maptbx/bcr/tst_qmap_02.py -> build/lib/cctbx/maptbx/bcr copying cctbx/maptbx/bcr/tst_example.py -> build/lib/cctbx/maptbx/bcr copying cctbx/maptbx/bcr/tst_vrm2.py -> build/lib/cctbx/maptbx/bcr copying cctbx/maptbx/bcr/compute_tables.py -> build/lib/cctbx/maptbx/bcr copying cctbx/maptbx/bcr/qmap.py -> build/lib/cctbx/maptbx/bcr copying cctbx/maptbx/bcr/__init__.py -> build/lib/cctbx/maptbx/bcr copying cctbx/maptbx/bcr/tst_two_atoms.py -> build/lib/cctbx/maptbx/bcr copying cctbx/maptbx/bcr/tst_vrm.py -> build/lib/cctbx/maptbx/bcr copying cctbx/maptbx/bcr/tst_table.py -> build/lib/cctbx/maptbx/bcr copying cctbx/maptbx/bcr/tst_adp_refine.py -> build/lib/cctbx/maptbx/bcr creating build/lib/cctbx/web/asu_gallery copying cctbx/web/asu_gallery/jv_index.py -> build/lib/cctbx/web/asu_gallery copying cctbx/web/asu_gallery/jv_asu.py -> build/lib/cctbx/web/asu_gallery copying cctbx/web/asu_gallery/jvx.py -> build/lib/cctbx/web/asu_gallery copying cctbx/web/asu_gallery/guide_to_notation.py -> build/lib/cctbx/web/asu_gallery copying cctbx/web/asu_gallery/__init__.py -> build/lib/cctbx/web/asu_gallery copying cctbx/web/asu_gallery/web_links.py -> build/lib/cctbx/web/asu_gallery creating build/lib/cctbx/sgtbx/direct_space_asu copying cctbx/sgtbx/direct_space_asu/cut_plane.py -> build/lib/cctbx/sgtbx/direct_space_asu copying cctbx/sgtbx/direct_space_asu/check_redundancies.py -> build/lib/cctbx/sgtbx/direct_space_asu copying cctbx/sgtbx/direct_space_asu/facet_analysis.py -> build/lib/cctbx/sgtbx/direct_space_asu copying cctbx/sgtbx/direct_space_asu/short_cuts.py -> build/lib/cctbx/sgtbx/direct_space_asu copying cctbx/sgtbx/direct_space_asu/plane_group_reference_table.py -> build/lib/cctbx/sgtbx/direct_space_asu copying cctbx/sgtbx/direct_space_asu/__init__.py -> build/lib/cctbx/sgtbx/direct_space_asu copying cctbx/sgtbx/direct_space_asu/reference_table.py -> build/lib/cctbx/sgtbx/direct_space_asu creating build/lib/cctbx/sgtbx/direct_space_asu/proto copying cctbx/sgtbx/direct_space_asu/proto/tst_asu.py -> build/lib/cctbx/sgtbx/direct_space_asu/proto copying cctbx/sgtbx/direct_space_asu/proto/generate_cpp_asu_table.py -> build/lib/cctbx/sgtbx/direct_space_asu/proto copying cctbx/sgtbx/direct_space_asu/proto/__init__.py -> build/lib/cctbx/sgtbx/direct_space_asu/proto creating build/lib/cctbx/xray/observations copying cctbx/xray/observations/tst_observations.py -> build/lib/cctbx/xray/observations copying cctbx/xray/observations/__init__.py -> build/lib/cctbx/xray/observations creating build/lib/cctbx/xray/targets copying cctbx/xray/targets/tst_shelxl_wght_ls.py -> build/lib/cctbx/xray/targets copying cctbx/xray/targets/__init__.py -> build/lib/cctbx/xray/targets copying cctbx/xray/targets/tst_r1.py -> build/lib/cctbx/xray/targets copying cctbx/xray/targets/r1.py -> build/lib/cctbx/xray/targets creating build/lib/cctbx/xray/structure_factors copying cctbx/xray/structure_factors/algorithm.py -> build/lib/cctbx/xray/structure_factors copying cctbx/xray/structure_factors/from_scatterers.py -> build/lib/cctbx/xray/structure_factors copying cctbx/xray/structure_factors/manager.py -> build/lib/cctbx/xray/structure_factors copying cctbx/xray/structure_factors/gradients_base.py -> build/lib/cctbx/xray/structure_factors copying cctbx/xray/structure_factors/gradients_fft.py -> build/lib/cctbx/xray/structure_factors copying cctbx/xray/structure_factors/gradients_direct.py -> build/lib/cctbx/xray/structure_factors copying cctbx/xray/structure_factors/from_scatterers_direct_parallel.py -> build/lib/cctbx/xray/structure_factors copying cctbx/xray/structure_factors/from_scatterers_fft.py -> build/lib/cctbx/xray/structure_factors copying cctbx/xray/structure_factors/gradients.py -> build/lib/cctbx/xray/structure_factors copying cctbx/xray/structure_factors/__init__.py -> build/lib/cctbx/xray/structure_factors copying cctbx/xray/structure_factors/global_counters.py -> build/lib/cctbx/xray/structure_factors copying cctbx/xray/structure_factors/from_scatterers_direct.py -> build/lib/cctbx/xray/structure_factors copying cctbx/xray/structure_factors/misc.py -> build/lib/cctbx/xray/structure_factors copying cctbx/xray/structure_factors/gradient_flags.py -> build/lib/cctbx/xray/structure_factors creating build/lib/cctbx/eltbx/development copying cctbx/eltbx/development/rez_rez_grant.py -> build/lib/cctbx/eltbx/development copying cctbx/eltbx/development/kissel_io.py -> build/lib/cctbx/eltbx/development copying cctbx/eltbx/development/kissel_fits.py -> build/lib/cctbx/eltbx/development copying cctbx/eltbx/development/itvc_fits.py -> build/lib/cctbx/eltbx/development copying cctbx/eltbx/development/create_n_gaussian_raw_cpp.py -> build/lib/cctbx/eltbx/development copying cctbx/eltbx/development/combine_fits.py -> build/lib/cctbx/eltbx/development copying cctbx/eltbx/development/format_gaussian_fits.py -> build/lib/cctbx/eltbx/development copying cctbx/eltbx/development/itvc_section61_io.py -> build/lib/cctbx/eltbx/development copying cctbx/eltbx/development/itvc_approx.py -> build/lib/cctbx/eltbx/development copying cctbx/eltbx/development/__init__.py -> build/lib/cctbx/eltbx/development copying cctbx/eltbx/development/e_scattering_plots.py -> build/lib/cctbx/eltbx/development copying cctbx/eltbx/development/itvc_kissel.py -> build/lib/cctbx/eltbx/development copying cctbx/eltbx/development/itvc_cross_validation.py -> build/lib/cctbx/eltbx/development copying cctbx/eltbx/development/hydrogen_plots.py -> build/lib/cctbx/eltbx/development creating build/lib/cctbx/eltbx/xray_scattering copying cctbx/eltbx/xray_scattering/__init__.py -> build/lib/cctbx/eltbx/xray_scattering creating build/lib/libtbx/command_line copying libtbx/command_line/find_untested.py -> build/lib/libtbx/command_line copying libtbx/command_line/show_full_command_path.py -> build/lib/libtbx/command_line copying libtbx/command_line/printenv.py -> build/lib/libtbx/command_line copying libtbx/command_line/show_dist_paths.py -> build/lib/libtbx/command_line copying libtbx/command_line/find_reserved_names.py -> build/lib/libtbx/command_line copying libtbx/command_line/show_but_no_repr.py -> build/lib/libtbx/command_line copying libtbx/command_line/find_in_repositories.py -> build/lib/libtbx/command_line copying libtbx/command_line/create_installer.py -> build/lib/libtbx/command_line copying libtbx/command_line/assert_stdin.py -> build/lib/libtbx/command_line copying libtbx/command_line/clean_clutter.py -> build/lib/libtbx/command_line copying libtbx/command_line/create_install_script_bat.py -> build/lib/libtbx/command_line copying libtbx/command_line/show_env.py -> build/lib/libtbx/command_line copying libtbx/command_line/run_tests_parallel.py -> build/lib/libtbx/command_line copying libtbx/command_line/phil.py -> build/lib/libtbx/command_line copying libtbx/command_line/resource_monitor_plot.py -> build/lib/libtbx/command_line copying libtbx/command_line/assert_stdin_ends_with.py -> build/lib/libtbx/command_line copying libtbx/command_line/bootstrap.py -> build/lib/libtbx/command_line copying libtbx/command_line/sge_available_slots.py -> build/lib/libtbx/command_line copying libtbx/command_line/dtrace.py -> build/lib/libtbx/command_line copying libtbx/command_line/wait_for_file.py -> build/lib/libtbx/command_line copying libtbx/command_line/remove_unused_imports.py -> build/lib/libtbx/command_line copying libtbx/command_line/show_module_dependencies.py -> build/lib/libtbx/command_line copying libtbx/command_line/check_libcpp.py -> build/lib/libtbx/command_line copying libtbx/command_line/seconds_since_the_epoch.py -> build/lib/libtbx/command_line copying libtbx/command_line/show_host_and_user.py -> build/lib/libtbx/command_line copying libtbx/command_line/list_modules.py -> build/lib/libtbx/command_line copying libtbx/command_line/line_count.py -> build/lib/libtbx/command_line copying libtbx/command_line/easy_qsub.py -> build/lib/libtbx/command_line copying libtbx/command_line/assert_line_count.py -> build/lib/libtbx/command_line copying libtbx/command_line/show_lib_path.py -> build/lib/libtbx/command_line copying libtbx/command_line/list_source_files_sorted_by_size.py -> build/lib/libtbx/command_line copying libtbx/command_line/assert_stdin_contains_strings.py -> build/lib/libtbx/command_line copying libtbx/command_line/add_docstrings_with_ai.py -> build/lib/libtbx/command_line copying libtbx/command_line/reindent.py -> build/lib/libtbx/command_line copying libtbx/command_line/any2unix.py -> build/lib/libtbx/command_line copying libtbx/command_line/show_date_and_time.py -> build/lib/libtbx/command_line copying libtbx/command_line/clear_paths.py -> build/lib/libtbx/command_line copying libtbx/command_line/find_clutter.py -> build/lib/libtbx/command_line copying libtbx/command_line/bundle_as_exe.py -> build/lib/libtbx/command_line copying libtbx/command_line/assert_not_show_diff.py -> build/lib/libtbx/command_line copying libtbx/command_line/start_binary_bundle.py -> build/lib/libtbx/command_line copying libtbx/command_line/find_under_build.py -> build/lib/libtbx/command_line copying libtbx/command_line/start_process.py -> build/lib/libtbx/command_line copying libtbx/command_line/create_mac_app.py -> build/lib/libtbx/command_line copying libtbx/command_line/import_all_python.py -> build/lib/libtbx/command_line copying libtbx/command_line/show_number_of_processors.py -> build/lib/libtbx/command_line copying libtbx/command_line/remote_processing.py -> build/lib/libtbx/command_line copying libtbx/command_line/show_repository_paths.py -> build/lib/libtbx/command_line copying libtbx/command_line/show_numeric_version.py -> build/lib/libtbx/command_line copying libtbx/command_line/help.py -> build/lib/libtbx/command_line copying libtbx/command_line/show_include_paths.py -> build/lib/libtbx/command_line copying libtbx/command_line/show_build_path.py -> build/lib/libtbx/command_line copying libtbx/command_line/parallel_simple.py -> build/lib/libtbx/command_line copying libtbx/command_line/ipython_shell_start.py -> build/lib/libtbx/command_line copying libtbx/command_line/find_unused_imports.py -> build/lib/libtbx/command_line copying libtbx/command_line/create_windows_exe.py -> build/lib/libtbx/command_line copying libtbx/command_line/env_run.py -> build/lib/libtbx/command_line copying libtbx/command_line/show_python_dependencies.py -> build/lib/libtbx/command_line copying libtbx/command_line/nequal.py -> build/lib/libtbx/command_line copying libtbx/command_line/show_commands.py -> build/lib/libtbx/command_line copying libtbx/command_line/show_build_options.py -> build/lib/libtbx/command_line copying libtbx/command_line/show_all_on_path.py -> build/lib/libtbx/command_line copying libtbx/command_line/analyse_code_comments.py -> build/lib/libtbx/command_line copying libtbx/command_line/find_pdb_mmcif_problems.py -> build/lib/libtbx/command_line copying libtbx/command_line/install.py -> build/lib/libtbx/command_line copying libtbx/command_line/show_pythonpath.py -> build/lib/libtbx/command_line copying libtbx/command_line/find_old_style_classes.py -> build/lib/libtbx/command_line copying libtbx/command_line/sphinx_build.py -> build/lib/libtbx/command_line copying libtbx/command_line/show_python_sys_executable.py -> build/lib/libtbx/command_line copying libtbx/command_line/epydoc_run.py -> build/lib/libtbx/command_line copying libtbx/command_line/__init__.py -> build/lib/libtbx/command_line copying libtbx/command_line/show_numpy_version.py -> build/lib/libtbx/command_line copying libtbx/command_line/find_unused_imports_crude.py -> build/lib/libtbx/command_line copying libtbx/command_line/run_pickled_function.py -> build/lib/libtbx/command_line copying libtbx/command_line/scons.py -> build/lib/libtbx/command_line copying libtbx/command_line/show_tests.py -> build/lib/libtbx/command_line copying libtbx/command_line/show_bin_path.py -> build/lib/libtbx/command_line copying libtbx/command_line/raise_exception_for_testing.py -> build/lib/libtbx/command_line copying libtbx/command_line/remove_tree.py -> build/lib/libtbx/command_line copying libtbx/command_line/py_compile_all.py -> build/lib/libtbx/command_line copying libtbx/command_line/show_variable_names.py -> build/lib/libtbx/command_line copying libtbx/command_line/find_files.py -> build/lib/libtbx/command_line copying libtbx/command_line/create_cctbx_bundle_for_installer.py -> build/lib/libtbx/command_line copying libtbx/command_line/show_environ_usage.py -> build/lib/libtbx/command_line copying libtbx/command_line/create_unzipsfx.py -> build/lib/libtbx/command_line copying libtbx/command_line/make_sphinx_html.py -> build/lib/libtbx/command_line copying libtbx/command_line/git_avoid_merges.py -> build/lib/libtbx/command_line copying libtbx/command_line/cctbx_chunk.py -> build/lib/libtbx/command_line copying libtbx/command_line/create_selfx.py -> build/lib/libtbx/command_line copying libtbx/command_line/make_dist.py -> build/lib/libtbx/command_line copying libtbx/command_line/extract_code_from_txt.py -> build/lib/libtbx/command_line copying libtbx/command_line/install_conda.py -> build/lib/libtbx/command_line copying libtbx/command_line/prime_factors_of.py -> build/lib/libtbx/command_line copying libtbx/command_line/list_files.py -> build/lib/libtbx/command_line copying libtbx/command_line/path_utility.py -> build/lib/libtbx/command_line copying libtbx/command_line/import_all_ext.py -> build/lib/libtbx/command_line copying libtbx/command_line/sge_qstat_counts.py -> build/lib/libtbx/command_line creating build/lib/libtbx/development copying libtbx/development/timers.py -> build/lib/libtbx/development copying libtbx/development/__init__.py -> build/lib/libtbx/development copying libtbx/development/xcode_build_phase.py -> build/lib/libtbx/development copying libtbx/development/except_Exception.py -> build/lib/libtbx/development creating build/lib/libtbx/langchain copying libtbx/langchain/phenix_knowledge.py -> build/lib/libtbx/langchain copying libtbx/langchain/run_inspect_db.py -> build/lib/libtbx/langchain copying libtbx/langchain/run_query_docs.py -> build/lib/libtbx/langchain copying libtbx/langchain/run_build_db.py -> build/lib/libtbx/langchain copying libtbx/langchain/__init__.py -> build/lib/libtbx/langchain creating build/lib/libtbx/queuing_system_utils copying libtbx/queuing_system_utils/remote.py -> build/lib/libtbx/queuing_system_utils copying libtbx/queuing_system_utils/lsf.py -> build/lib/libtbx/queuing_system_utils copying libtbx/queuing_system_utils/communication.py -> build/lib/libtbx/queuing_system_utils copying libtbx/queuing_system_utils/looping.py -> build/lib/libtbx/queuing_system_utils copying libtbx/queuing_system_utils/__init__.py -> build/lib/libtbx/queuing_system_utils copying libtbx/queuing_system_utils/scheduling.py -> build/lib/libtbx/queuing_system_utils copying libtbx/queuing_system_utils/pbs_utils.py -> build/lib/libtbx/queuing_system_utils copying libtbx/queuing_system_utils/scheduling_helpers.py -> build/lib/libtbx/queuing_system_utils copying libtbx/queuing_system_utils/tst.py -> build/lib/libtbx/queuing_system_utils copying libtbx/queuing_system_utils/generic.py -> build/lib/libtbx/queuing_system_utils copying libtbx/queuing_system_utils/sge_utils.py -> build/lib/libtbx/queuing_system_utils creating build/lib/libtbx/sphinx copying libtbx/sphinx/phil.py -> build/lib/libtbx/sphinx copying libtbx/sphinx/pubmed.py -> build/lib/libtbx/sphinx copying libtbx/sphinx/__init__.py -> build/lib/libtbx/sphinx copying libtbx/sphinx/python_string.py -> build/lib/libtbx/sphinx creating build/lib/libtbx/scheduling copying libtbx/scheduling/job_scheduler.py -> build/lib/libtbx/scheduling copying libtbx/scheduling/mp_handler.py -> build/lib/libtbx/scheduling copying libtbx/scheduling/socket_queue.py -> build/lib/libtbx/scheduling copying libtbx/scheduling/cluster_handler.py -> build/lib/libtbx/scheduling copying libtbx/scheduling/parallel_for.py -> build/lib/libtbx/scheduling copying libtbx/scheduling/stacktrace.py -> build/lib/libtbx/scheduling copying libtbx/scheduling/mainthread.py -> build/lib/libtbx/scheduling copying libtbx/scheduling/thread_handler.py -> build/lib/libtbx/scheduling copying libtbx/scheduling/shared_resource.py -> build/lib/libtbx/scheduling copying libtbx/scheduling/file_queue.py -> build/lib/libtbx/scheduling copying libtbx/scheduling/__init__.py -> build/lib/libtbx/scheduling copying libtbx/scheduling/philgen.py -> build/lib/libtbx/scheduling copying libtbx/scheduling/result.py -> build/lib/libtbx/scheduling copying libtbx/scheduling/process_pool.py -> build/lib/libtbx/scheduling creating build/lib/libtbx/phil copying libtbx/phil/interface.py -> build/lib/libtbx/phil copying libtbx/phil/tst_tokenizer.py -> build/lib/libtbx/phil copying libtbx/phil/gui_objects.py -> build/lib/libtbx/phil copying libtbx/phil/tst_interface.py -> build/lib/libtbx/phil copying libtbx/phil/tst_experimental.py -> build/lib/libtbx/phil copying libtbx/phil/tokenizer.py -> build/lib/libtbx/phil copying libtbx/phil/parser.py -> build/lib/libtbx/phil copying libtbx/phil/__init__.py -> build/lib/libtbx/phil copying libtbx/phil/experimental.py -> build/lib/libtbx/phil copying libtbx/phil/command_line.py -> build/lib/libtbx/phil copying libtbx/phil/tst.py -> build/lib/libtbx/phil creating build/lib/libtbx/bundle copying libtbx/bundle/copy_build_libtbx.py -> build/lib/libtbx/bundle copying libtbx/bundle/install_csh.py -> build/lib/libtbx/bundle copying libtbx/bundle/__init__.py -> build/lib/libtbx/bundle copying libtbx/bundle/copy_all.py -> build/lib/libtbx/bundle copying libtbx/bundle/copy_runtime_sources.py -> build/lib/libtbx/bundle copying libtbx/bundle/install_bat.py -> build/lib/libtbx/bundle copying libtbx/bundle/utils.py -> build/lib/libtbx/bundle creating build/lib/libtbx/test_utils copying libtbx/test_utils/parallel.py -> build/lib/libtbx/test_utils copying libtbx/test_utils/__init__.py -> build/lib/libtbx/test_utils creating build/lib/libtbx/program_utils copying libtbx/program_utils/statistics_info.py -> build/lib/libtbx/program_utils copying libtbx/program_utils/__init__.py -> build/lib/libtbx/program_utils copying libtbx/program_utils/result.py -> build/lib/libtbx/program_utils creating build/lib/libtbx/server copying libtbx/server/StartServer.py -> build/lib/libtbx/server copying libtbx/server/FileSocket.py -> build/lib/libtbx/server copying libtbx/server/FileServer.py -> build/lib/libtbx/server copying libtbx/server/__init__.py -> build/lib/libtbx/server copying libtbx/server/FileClient.py -> build/lib/libtbx/server copying libtbx/server/SocketServer.py -> build/lib/libtbx/server creating build/lib/libtbx/auto_build copying libtbx/auto_build/make_bundle.py -> build/lib/libtbx/auto_build copying libtbx/auto_build/install_distribution.py -> build/lib/libtbx/auto_build copying libtbx/auto_build/create_installer.py -> build/lib/libtbx/auto_build copying libtbx/auto_build/regenerate_module_files.py -> build/lib/libtbx/auto_build copying libtbx/auto_build/bootstrap.py -> build/lib/libtbx/auto_build copying libtbx/auto_build/package_defs.py -> build/lib/libtbx/auto_build copying libtbx/auto_build/create_mac_app.py -> build/lib/libtbx/auto_build copying libtbx/auto_build/setup_installer.py -> build/lib/libtbx/auto_build copying libtbx/auto_build/plus_installer.py -> build/lib/libtbx/auto_build copying libtbx/auto_build/rpath.py -> build/lib/libtbx/auto_build copying libtbx/auto_build/create_windows_exe.py -> build/lib/libtbx/auto_build copying libtbx/auto_build/install_base_packages.py -> build/lib/libtbx/auto_build copying libtbx/auto_build/create_windows_installer.py -> build/lib/libtbx/auto_build copying libtbx/auto_build/installer_utils.py -> build/lib/libtbx/auto_build copying libtbx/auto_build/__init__.py -> build/lib/libtbx/auto_build copying libtbx/auto_build/write_gui_dispatcher_include.py -> build/lib/libtbx/auto_build copying libtbx/auto_build/create_cctbx_bundle_for_installer.py -> build/lib/libtbx/auto_build copying libtbx/auto_build/install_conda.py -> build/lib/libtbx/auto_build copying libtbx/auto_build/create_mac_pkg.py -> build/lib/libtbx/auto_build creating build/lib/libtbx/langchain/knowledge copying libtbx/langchain/knowledge/phenix_programs.py -> build/lib/libtbx/langchain/knowledge copying libtbx/langchain/knowledge/yaml_loader.py -> build/lib/libtbx/langchain/knowledge copying libtbx/langchain/knowledge/summary_display.py -> build/lib/libtbx/langchain/knowledge copying libtbx/langchain/knowledge/thinking_prompts.py -> build/lib/libtbx/langchain/knowledge copying libtbx/langchain/knowledge/prompts_hybrid.py -> build/lib/libtbx/langchain/knowledge copying libtbx/langchain/knowledge/html_report_template.py -> build/lib/libtbx/langchain/knowledge copying libtbx/langchain/knowledge/plan_schema.py -> build/lib/libtbx/langchain/knowledge copying libtbx/langchain/knowledge/plan_template_loader.py -> build/lib/libtbx/langchain/knowledge copying libtbx/langchain/knowledge/metric_patterns.py -> build/lib/libtbx/langchain/knowledge copying libtbx/langchain/knowledge/kb_loader.py -> build/lib/libtbx/langchain/knowledge copying libtbx/langchain/knowledge/__init__.py -> build/lib/libtbx/langchain/knowledge copying libtbx/langchain/knowledge/api_schema.py -> build/lib/libtbx/langchain/knowledge copying libtbx/langchain/knowledge/prompts.py -> build/lib/libtbx/langchain/knowledge copying libtbx/langchain/knowledge/explanation_prompts.py -> build/lib/libtbx/langchain/knowledge copying libtbx/langchain/knowledge/program_registration.py -> build/lib/libtbx/langchain/knowledge creating build/lib/libtbx/langchain/commands copying libtbx/langchain/commands/base.py -> build/lib/libtbx/langchain/commands copying libtbx/langchain/commands/__init__.py -> build/lib/libtbx/langchain/commands creating build/lib/libtbx/langchain/examples copying libtbx/langchain/examples/__init__.py -> build/lib/libtbx/langchain/examples creating build/lib/libtbx/langchain/agent copying libtbx/langchain/agent/perceive_checks.py -> build/lib/libtbx/langchain/agent copying libtbx/langchain/agent/graph_state.py -> build/lib/libtbx/langchain/agent copying libtbx/langchain/agent/thinking_agent.py -> build/lib/libtbx/langchain/agent copying libtbx/langchain/agent/placement_checker.py -> build/lib/libtbx/langchain/agent copying libtbx/langchain/agent/sanity_checker.py -> build/lib/libtbx/langchain/agent copying libtbx/langchain/agent/command_postprocessor.py -> build/lib/libtbx/langchain/agent copying libtbx/langchain/agent/strategy_memory.py -> build/lib/libtbx/langchain/agent copying libtbx/langchain/agent/program_registry.py -> build/lib/libtbx/langchain/agent copying libtbx/langchain/agent/session_tools.py -> build/lib/libtbx/langchain/agent copying libtbx/langchain/agent/command_builder.py -> build/lib/libtbx/langchain/agent copying libtbx/langchain/agent/event_log.py -> build/lib/libtbx/langchain/agent copying libtbx/langchain/agent/program_validator.py -> build/lib/libtbx/langchain/agent copying libtbx/langchain/agent/advice_preprocessor.py -> build/lib/libtbx/langchain/agent copying libtbx/langchain/agent/rules_selector.py -> build/lib/libtbx/langchain/agent copying libtbx/langchain/agent/metrics_analyzer.py -> build/lib/libtbx/langchain/agent copying libtbx/langchain/agent/directive_validator.py -> build/lib/libtbx/langchain/agent copying libtbx/langchain/agent/format_validation.py -> build/lib/libtbx/langchain/agent copying libtbx/langchain/agent/api_client.py -> build/lib/libtbx/langchain/agent copying libtbx/langchain/agent/gate_evaluator.py -> build/lib/libtbx/langchain/agent copying libtbx/langchain/agent/metric_evaluator.py -> build/lib/libtbx/langchain/agent copying libtbx/langchain/agent/generate_logic_doc.py -> build/lib/libtbx/langchain/agent copying libtbx/langchain/agent/tst_agent_enhancements.py -> build/lib/libtbx/langchain/agent copying libtbx/langchain/agent/error_analyzer.py -> build/lib/libtbx/langchain/agent copying libtbx/langchain/agent/display_data_model.py -> build/lib/libtbx/langchain/agent copying libtbx/langchain/agent/generate_safety_docs.py -> build/lib/libtbx/langchain/agent copying libtbx/langchain/agent/file_utils.py -> build/lib/libtbx/langchain/agent copying libtbx/langchain/agent/event_formatter.py -> build/lib/libtbx/langchain/agent copying libtbx/langchain/agent/planner.py -> build/lib/libtbx/langchain/agent copying libtbx/langchain/agent/session.py -> build/lib/libtbx/langchain/agent copying libtbx/langchain/agent/error_classifier.py -> build/lib/libtbx/langchain/agent copying libtbx/langchain/agent/graph_nodes.py -> build/lib/libtbx/langchain/agent copying libtbx/langchain/agent/plan_generator.py -> build/lib/libtbx/langchain/agent copying libtbx/langchain/agent/transport.py -> build/lib/libtbx/langchain/agent copying libtbx/langchain/agent/dry_run_manager.py -> build/lib/libtbx/langchain/agent copying libtbx/langchain/agent/template_builder.py -> build/lib/libtbx/langchain/agent copying libtbx/langchain/agent/docs_tools.py -> build/lib/libtbx/langchain/agent copying libtbx/langchain/agent/structure_model.py -> build/lib/libtbx/langchain/agent copying libtbx/langchain/agent/intent_classifier.py -> build/lib/libtbx/langchain/agent copying libtbx/langchain/agent/validation_inspector.py -> build/lib/libtbx/langchain/agent copying libtbx/langchain/agent/validation_history.py -> build/lib/libtbx/langchain/agent copying libtbx/langchain/agent/directive_extractor.py -> build/lib/libtbx/langchain/agent copying libtbx/langchain/agent/config_loader.py -> build/lib/libtbx/langchain/agent copying libtbx/langchain/agent/yaml_tools.py -> build/lib/libtbx/langchain/agent copying libtbx/langchain/agent/file_metadata.py -> build/lib/libtbx/langchain/agent copying libtbx/langchain/agent/kb_tags.py -> build/lib/libtbx/langchain/agent copying libtbx/langchain/agent/memory.py -> build/lib/libtbx/langchain/agent copying libtbx/langchain/agent/rate_limit_handler.py -> build/lib/libtbx/langchain/agent copying libtbx/langchain/agent/__init__.py -> build/lib/libtbx/langchain/agent copying libtbx/langchain/agent/workflow_engine.py -> build/lib/libtbx/langchain/agent copying libtbx/langchain/agent/failure_diagnoser.py -> build/lib/libtbx/langchain/agent copying libtbx/langchain/agent/hypothesis_evaluator.py -> build/lib/libtbx/langchain/agent copying libtbx/langchain/agent/phil_validator.py -> build/lib/libtbx/langchain/agent copying libtbx/langchain/agent/log_section_extractor.py -> build/lib/libtbx/langchain/agent copying libtbx/langchain/agent/phenix_utils.py -> build/lib/libtbx/langchain/agent copying libtbx/langchain/agent/graph.py -> build/lib/libtbx/langchain/agent copying libtbx/langchain/agent/pattern_manager.py -> build/lib/libtbx/langchain/agent copying libtbx/langchain/agent/contract.py -> build/lib/libtbx/langchain/agent copying libtbx/langchain/agent/nl_to_phil.py -> build/lib/libtbx/langchain/agent copying libtbx/langchain/agent/best_files_tracker.py -> build/lib/libtbx/langchain/agent copying libtbx/langchain/agent/utils.py -> build/lib/libtbx/langchain/agent copying libtbx/langchain/agent/workflow_state.py -> build/lib/libtbx/langchain/agent creating build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_api_schema.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/audit_phase_rename.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_stop_reason_prompt.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_workflow_state.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_silent_stop_abort_messages.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_new_programs.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_file_utils.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_advice_preprocessing.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_action_item_1.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_phase8_command_building.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_workflow_complete_stop.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_hardcoded_cleanup.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_langchain_tools.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_structure_model.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_best_files_tracker.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_thinking_defense.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_fix_verification.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_yaml_config.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_backward_compat.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_directive_extractor.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_program_registration.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_audit_fixes.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_history_analysis.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_sanity_checker.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_plan_generator.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_halfmap_sigmaa_inventory.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_utils.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_directive_validator.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_validate_file_overrides.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_phase3_bug5.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_yaml_tools.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_command_builder.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_pattern_manager.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_file_categorization.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_session_directives.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_plan_schema.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_v112_13_fixes.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_mtz_phases_session_blocking.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_phase4_history_flags.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_validation_history.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/test_api_keys.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_phase1_contract_gaps.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_contract_compliance.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_event_system.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_diagnosed_failure_stop.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_phase3_serialization_symmetry.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_copies_tracking.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_dry_run.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_decision_flow.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_log_extractor.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_stop_feedback_api_plan_command.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/run_all_tests.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_n_bugs.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_state_serialization.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_event_formatter_file_categories.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_error_classifier.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_old_client_compat.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_session_summary.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_directives_integration.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_metric_patterns.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_integration.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_phase2_path_consistency.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_error_analyzer.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_explanation_prompts.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_intent_classifier.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/__init__.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_phase7_routing_simulation.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_strategy_memory.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_template.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_summary_display.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_shared_code_imports.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_transport.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_docs_tools.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_autosol_bugs.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_phase6_category_consumer.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_phaser_multimodel.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_phase0_static_audit.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_gate_evaluator.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_hypothesis_evaluator.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_abort_message_all_stops.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_display_data_model.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_session_tools.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_stop_reason_codes.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_phil_validation.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_perceive_stop_checks.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/analyze_tutorial_runs.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_scenario_tracer.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_mtz_crosscheck.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_stop_condition_fix.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_phase9_llm_perturbation.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_thinking_agent.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_fabricated_stop_condition.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_metrics_analyzer.py -> build/lib/libtbx/langchain/tests copying libtbx/langchain/tests/tst_phase5_error_classification.py -> build/lib/libtbx/langchain/tests creating build/lib/libtbx/langchain/strategies copying libtbx/langchain/strategies/base.py -> build/lib/libtbx/langchain/strategies copying libtbx/langchain/strategies/__init__.py -> build/lib/libtbx/langchain/strategies creating build/lib/libtbx/langchain/rag copying libtbx/langchain/rag/vector_store.py -> build/lib/libtbx/langchain/rag copying libtbx/langchain/rag/retriever.py -> build/lib/libtbx/langchain/rag copying libtbx/langchain/rag/__init__.py -> build/lib/libtbx/langchain/rag copying libtbx/langchain/rag/document_loader.py -> build/lib/libtbx/langchain/rag creating build/lib/libtbx/langchain/analysis copying libtbx/langchain/analysis/analyzer.py -> build/lib/libtbx/langchain/analysis copying libtbx/langchain/analysis/state_extractor.py -> build/lib/libtbx/langchain/analysis copying libtbx/langchain/analysis/log_info.py -> build/lib/libtbx/langchain/analysis copying libtbx/langchain/analysis/agent_session_analyzer.py -> build/lib/libtbx/langchain/analysis copying libtbx/langchain/analysis/__init__.py -> build/lib/libtbx/langchain/analysis copying libtbx/langchain/analysis/summarizer.py -> build/lib/libtbx/langchain/analysis creating build/lib/libtbx/langchain/utils copying libtbx/langchain/utils/run_utils.py -> build/lib/libtbx/langchain/utils copying libtbx/langchain/utils/text_processing.py -> build/lib/libtbx/langchain/utils copying libtbx/langchain/utils/query.py -> build/lib/libtbx/langchain/utils copying libtbx/langchain/utils/__init__.py -> build/lib/libtbx/langchain/utils creating build/lib/libtbx/langchain/core copying libtbx/langchain/core/types.py -> build/lib/libtbx/langchain/core copying libtbx/langchain/core/llm.py -> build/lib/libtbx/langchain/core copying libtbx/langchain/core/__init__.py -> build/lib/libtbx/langchain/core creating build/lib/libtbx/langchain/validation copying libtbx/langchain/validation/phenix_refine.py -> build/lib/libtbx/langchain/validation copying libtbx/langchain/validation/core_validator.py -> build/lib/libtbx/langchain/validation copying libtbx/langchain/validation/registry.py -> build/lib/libtbx/langchain/validation copying libtbx/langchain/validation/base.py -> build/lib/libtbx/langchain/validation copying libtbx/langchain/validation/__init__.py -> build/lib/libtbx/langchain/validation copying libtbx/langchain/validation/mtz_utils.py -> build/lib/libtbx/langchain/validation creating build/lib/libtbx/langchain/tests/integration copying libtbx/langchain/tests/integration/__init__.py -> build/lib/libtbx/langchain/tests/integration creating build/lib/libtbx/queuing_system_utils/processing copying libtbx/queuing_system_utils/processing/polling.py -> build/lib/libtbx/queuing_system_utils/processing copying libtbx/queuing_system_utils/processing/submission.py -> build/lib/libtbx/queuing_system_utils/processing copying libtbx/queuing_system_utils/processing/util.py -> build/lib/libtbx/queuing_system_utils/processing copying libtbx/queuing_system_utils/processing/transfer.py -> build/lib/libtbx/queuing_system_utils/processing copying libtbx/queuing_system_utils/processing/__init__.py -> build/lib/libtbx/queuing_system_utils/processing copying libtbx/queuing_system_utils/processing/status.py -> build/lib/libtbx/queuing_system_utils/processing copying libtbx/queuing_system_utils/processing/errors.py -> build/lib/libtbx/queuing_system_utils/processing creating build/lib/cctbx_website/command_line copying cctbx_website/command_line/extract_script_from_html_cctbx_doc.py -> build/lib/cctbx_website/command_line copying cctbx_website/command_line/run_pdoc_cctbx_api.py -> build/lib/cctbx_website/command_line copying cctbx_website/command_line/comment_to_docstring.py -> build/lib/cctbx_website/command_line copying cctbx_website/command_line/tst_comment_to_docstring.py -> build/lib/cctbx_website/command_line copying cctbx_website/command_line/edit_html.py -> build/lib/cctbx_website/command_line copying cctbx_website/command_line/__init__.py -> build/lib/cctbx_website/command_line copying cctbx_website/command_line/edit_for_boost.py -> build/lib/cctbx_website/command_line creating build/lib/cctbx_website/regression copying cctbx_website/regression/tst_3_doc_hlo_model_manager.py -> build/lib/cctbx_website/regression copying cctbx_website/regression/tst_15_doc_models_hierarchy.py -> build/lib/cctbx_website/regression copying cctbx_website/regression/tst_1_template.py -> build/lib/cctbx_website/regression copying cctbx_website/regression/tst_5_doc_hlo_map_manager.py -> build/lib/cctbx_website/regression copying cctbx_website/regression/tst_4_doc_hlo_data_manager.py -> build/lib/cctbx_website/regression copying cctbx_website/regression/tst_6_doc_hlo_model_map_manager.py -> build/lib/cctbx_website/regression copying cctbx_website/regression/tst_9_doc_maps_boxing.py -> build/lib/cctbx_website/regression copying cctbx_website/regression/tst_py_from_html.py -> build/lib/cctbx_website/regression copying cctbx_website/regression/exercise.py -> build/lib/cctbx_website/regression copying cctbx_website/regression/tst_18_doc_programming_tips_2.py -> build/lib/cctbx_website/regression copying cctbx_website/regression/tst_19_doc_programming_tips_3.py -> build/lib/cctbx_website/regression copying cctbx_website/regression/tst_13_script_ideal_ss.py -> build/lib/cctbx_website/regression copying cctbx_website/regression/tst_14_script_lbfgs_no_curvature.py -> build/lib/cctbx_website/regression copying cctbx_website/regression/tst_10_doc_programming_tips_1.py -> build/lib/cctbx_website/regression copying cctbx_website/regression/__init__.py -> build/lib/cctbx_website/regression copying cctbx_website/regression/tst_17_script_rfactors.py -> build/lib/cctbx_website/regression copying cctbx_website/regression/tst_2_doc_hlo_intro.py -> build/lib/cctbx_website/regression copying cctbx_website/regression/tst_8_doc_maps_intro.py -> build/lib/cctbx_website/regression copying cctbx_website/regression/tst_7_doc_low_flex_advanced.py -> build/lib/cctbx_website/regression copying cctbx_website/regression/tst_12_script_compare_ss.py -> build/lib/cctbx_website/regression copying cctbx_website/regression/tst_11_script_1.py -> build/lib/cctbx_website/regression copying cctbx_website/regression/tst_16_script_lbfgs_with_curvature.py -> build/lib/cctbx_website/regression creating build/lib/cbflib_adaptbx/command_line copying cbflib_adaptbx/command_line/dump.py -> build/lib/cbflib_adaptbx/command_line copying cbflib_adaptbx/command_line/__init__.py -> build/lib/cbflib_adaptbx/command_line running egg_info creating cctbx.egg-info writing cctbx.egg-info/PKG-INFO writing dependency_links to cctbx.egg-info/dependency_links.txt writing requirements to cctbx.egg-info/requires.txt writing top-level names to cctbx.egg-info/top_level.txt writing manifest file 'cctbx.egg-info/SOURCES.txt' reading manifest file 'cctbx.egg-info/SOURCES.txt' adding license file 'LICENSE.txt' writing manifest file 'cctbx.egg-info/SOURCES.txt' installing to build/bdist.linux-x86_64/wheel running install running install_lib creating build/bdist.linux-x86_64/wheel creating build/bdist.linux-x86_64/wheel/annlib_adaptbx creating build/bdist.linux-x86_64/wheel/annlib_adaptbx/annlib_adaptbx copying build/lib/annlib_adaptbx/annlib_adaptbx/self_match.py -> build/bdist.linux-x86_64/wheel/./annlib_adaptbx/annlib_adaptbx copying build/lib/annlib_adaptbx/annlib_adaptbx/sample.py -> build/bdist.linux-x86_64/wheel/./annlib_adaptbx/annlib_adaptbx copying build/lib/annlib_adaptbx/annlib_adaptbx/__init__.py -> build/bdist.linux-x86_64/wheel/./annlib_adaptbx/annlib_adaptbx creating build/bdist.linux-x86_64/wheel/annlib_adaptbx/source_generators copying build/lib/annlib_adaptbx/source_generators/__init__.py -> build/bdist.linux-x86_64/wheel/./annlib_adaptbx/source_generators copying build/lib/annlib_adaptbx/source_generators/generate_all.py -> build/bdist.linux-x86_64/wheel/./annlib_adaptbx/source_generators copying build/lib/annlib_adaptbx/__init__.py -> build/bdist.linux-x86_64/wheel/./annlib_adaptbx copying build/lib/annlib_adaptbx/run_tests.py -> build/bdist.linux-x86_64/wheel/./annlib_adaptbx creating build/bdist.linux-x86_64/wheel/fftw3tbx copying build/lib/fftw3tbx/__init__.py -> build/bdist.linux-x86_64/wheel/./fftw3tbx copying build/lib/fftw3tbx/libtbx_refresh.py -> build/bdist.linux-x86_64/wheel/./fftw3tbx copying build/lib/fftw3tbx/tst_ext.py -> build/bdist.linux-x86_64/wheel/./fftw3tbx creating build/bdist.linux-x86_64/wheel/smtbx creating build/bdist.linux-x86_64/wheel/smtbx/command_line copying build/lib/smtbx/command_line/absolute_structure.py -> build/bdist.linux-x86_64/wheel/./smtbx/command_line copying build/lib/smtbx/command_line/refine.py -> build/bdist.linux-x86_64/wheel/./smtbx/command_line copying build/lib/smtbx/command_line/anom_refine.py -> build/bdist.linux-x86_64/wheel/./smtbx/command_line copying build/lib/smtbx/command_line/__init__.py -> build/bdist.linux-x86_64/wheel/./smtbx/command_line copying build/lib/smtbx/command_line/masks.py -> build/bdist.linux-x86_64/wheel/./smtbx/command_line copying build/lib/smtbx/command_line/benchmark_refinement.py -> build/bdist.linux-x86_64/wheel/./smtbx/command_line creating build/bdist.linux-x86_64/wheel/smtbx/stl copying build/lib/smtbx/stl/map.py -> build/bdist.linux-x86_64/wheel/./smtbx/stl copying build/lib/smtbx/stl/__init__.py -> build/bdist.linux-x86_64/wheel/./smtbx/stl creating build/bdist.linux-x86_64/wheel/smtbx/masks copying build/lib/smtbx/masks/__init__.py -> build/bdist.linux-x86_64/wheel/./smtbx/masks copying build/lib/smtbx/development.py -> build/bdist.linux-x86_64/wheel/./smtbx creating build/bdist.linux-x86_64/wheel/smtbx/array_family copying build/lib/smtbx/array_family/__init__.py -> build/bdist.linux-x86_64/wheel/./smtbx/array_family creating build/bdist.linux-x86_64/wheel/smtbx/source_generators copying build/lib/smtbx/source_generators/flex_fwd_h.py -> build/bdist.linux-x86_64/wheel/./smtbx/source_generators copying build/lib/smtbx/source_generators/__init__.py -> build/bdist.linux-x86_64/wheel/./smtbx/source_generators creating build/bdist.linux-x86_64/wheel/smtbx/regression creating build/bdist.linux-x86_64/wheel/smtbx/regression/test_data copying build/lib/smtbx/regression/test_data/__init__.py -> build/bdist.linux-x86_64/wheel/./smtbx/regression/test_data copying build/lib/smtbx/regression/__init__.py -> build/bdist.linux-x86_64/wheel/./smtbx/regression copying build/lib/smtbx/regression/tst_commandline_refine.py -> build/bdist.linux-x86_64/wheel/./smtbx/regression copying build/lib/smtbx/regression/tst_commandline_anomrefine.py -> build/bdist.linux-x86_64/wheel/./smtbx/regression creating build/bdist.linux-x86_64/wheel/smtbx/ab_initio creating build/bdist.linux-x86_64/wheel/smtbx/ab_initio/tests copying build/lib/smtbx/ab_initio/tests/__init__.py -> build/bdist.linux-x86_64/wheel/./smtbx/ab_initio/tests copying build/lib/smtbx/ab_initio/tests/tst_charge_flipping.py -> build/bdist.linux-x86_64/wheel/./smtbx/ab_initio/tests copying build/lib/smtbx/ab_initio/tests/tst_ab_initio_ext.py -> build/bdist.linux-x86_64/wheel/./smtbx/ab_initio/tests copying build/lib/smtbx/ab_initio/charge_flipping.py -> build/bdist.linux-x86_64/wheel/./smtbx/ab_initio copying build/lib/smtbx/ab_initio/__init__.py -> build/bdist.linux-x86_64/wheel/./smtbx/ab_initio creating build/bdist.linux-x86_64/wheel/smtbx/refinement copying build/lib/smtbx/refinement/weighting_schemes.py -> build/bdist.linux-x86_64/wheel/./smtbx/refinement copying build/lib/smtbx/refinement/least_squares.py -> build/bdist.linux-x86_64/wheel/./smtbx/refinement copying build/lib/smtbx/refinement/__init__.py -> build/bdist.linux-x86_64/wheel/./smtbx/refinement creating build/bdist.linux-x86_64/wheel/smtbx/refinement/restraints copying build/lib/smtbx/refinement/restraints/origin_fixing_restraints.py -> build/bdist.linux-x86_64/wheel/./smtbx/refinement/restraints copying build/lib/smtbx/refinement/restraints/adp_restraints.py -> build/bdist.linux-x86_64/wheel/./smtbx/refinement/restraints copying build/lib/smtbx/refinement/restraints/__init__.py -> build/bdist.linux-x86_64/wheel/./smtbx/refinement/restraints creating build/bdist.linux-x86_64/wheel/smtbx/refinement/constraints copying build/lib/smtbx/refinement/constraints/rigid.py -> build/bdist.linux-x86_64/wheel/./smtbx/refinement/constraints copying build/lib/smtbx/refinement/constraints/occupancy.py -> build/bdist.linux-x86_64/wheel/./smtbx/refinement/constraints creating build/bdist.linux-x86_64/wheel/smtbx/refinement/constraints/geometrical copying build/lib/smtbx/refinement/constraints/geometrical/hydrogens.py -> build/bdist.linux-x86_64/wheel/./smtbx/refinement/constraints/geometrical copying build/lib/smtbx/refinement/constraints/geometrical/all.py -> build/bdist.linux-x86_64/wheel/./smtbx/refinement/constraints/geometrical copying build/lib/smtbx/refinement/constraints/geometrical/__init__.py -> build/bdist.linux-x86_64/wheel/./smtbx/refinement/constraints/geometrical creating build/bdist.linux-x86_64/wheel/smtbx/refinement/constraints/tests copying build/lib/smtbx/refinement/constraints/tests/tst_occupancies.py -> build/bdist.linux-x86_64/wheel/./smtbx/refinement/constraints/tests copying build/lib/smtbx/refinement/constraints/tests/tst_direction.py -> build/bdist.linux-x86_64/wheel/./smtbx/refinement/constraints/tests copying build/lib/smtbx/refinement/constraints/tests/tst_lbfgs.py -> build/bdist.linux-x86_64/wheel/./smtbx/refinement/constraints/tests copying build/lib/smtbx/refinement/constraints/tests/tst_same_group.py -> build/bdist.linux-x86_64/wheel/./smtbx/refinement/constraints/tests copying build/lib/smtbx/refinement/constraints/tests/tst_constrained_structure.py -> build/bdist.linux-x86_64/wheel/./smtbx/refinement/constraints/tests copying build/lib/smtbx/refinement/constraints/tests/tst_reparametrisation.py -> build/bdist.linux-x86_64/wheel/./smtbx/refinement/constraints/tests copying build/lib/smtbx/refinement/constraints/tests/__init__.py -> build/bdist.linux-x86_64/wheel/./smtbx/refinement/constraints/tests copying build/lib/smtbx/refinement/constraints/tests/tst_rigid.py -> build/bdist.linux-x86_64/wheel/./smtbx/refinement/constraints/tests copying build/lib/smtbx/refinement/constraints/tests/tst_disorder.py -> build/bdist.linux-x86_64/wheel/./smtbx/refinement/constraints/tests copying build/lib/smtbx/refinement/constraints/fpfdp.py -> build/bdist.linux-x86_64/wheel/./smtbx/refinement/constraints copying build/lib/smtbx/refinement/constraints/adp.py -> build/bdist.linux-x86_64/wheel/./smtbx/refinement/constraints copying build/lib/smtbx/refinement/constraints/site.py -> build/bdist.linux-x86_64/wheel/./smtbx/refinement/constraints copying build/lib/smtbx/refinement/constraints/all.py -> build/bdist.linux-x86_64/wheel/./smtbx/refinement/constraints copying build/lib/smtbx/refinement/constraints/__init__.py -> build/bdist.linux-x86_64/wheel/./smtbx/refinement/constraints copying build/lib/smtbx/__init__.py -> build/bdist.linux-x86_64/wheel/./smtbx copying build/lib/smtbx/run_tests.py -> build/bdist.linux-x86_64/wheel/./smtbx creating build/bdist.linux-x86_64/wheel/smtbx/absolute_structure copying build/lib/smtbx/absolute_structure/__init__.py -> build/bdist.linux-x86_64/wheel/./smtbx/absolute_structure copying build/lib/smtbx/libtbx_refresh.py -> build/bdist.linux-x86_64/wheel/./smtbx creating build/bdist.linux-x86_64/wheel/smtbx/structure_factors copying build/lib/smtbx/structure_factors/__init__.py -> build/bdist.linux-x86_64/wheel/./smtbx/structure_factors creating build/bdist.linux-x86_64/wheel/smtbx/structure_factors/direct copying build/lib/smtbx/structure_factors/direct/__init__.py -> build/bdist.linux-x86_64/wheel/./smtbx/structure_factors/direct copying build/lib/smtbx/utils.py -> build/bdist.linux-x86_64/wheel/./smtbx creating build/bdist.linux-x86_64/wheel/wxtbx copying build/lib/wxtbx/checklistctrl.py -> build/bdist.linux-x86_64/wheel/./wxtbx creating build/bdist.linux-x86_64/wheel/wxtbx/phil_controls copying build/lib/wxtbx/phil_controls/choice_multi.py -> build/bdist.linux-x86_64/wheel/./wxtbx/phil_controls copying build/lib/wxtbx/phil_controls/path.py -> build/bdist.linux-x86_64/wheel/./wxtbx/phil_controls copying build/lib/wxtbx/phil_controls/tribool.py -> build/bdist.linux-x86_64/wheel/./wxtbx/phil_controls copying build/lib/wxtbx/phil_controls/floats.py -> build/bdist.linux-x86_64/wheel/./wxtbx/phil_controls copying build/lib/wxtbx/phil_controls/tree.py -> build/bdist.linux-x86_64/wheel/./wxtbx/phil_controls copying build/lib/wxtbx/phil_controls/unit_cell.py -> build/bdist.linux-x86_64/wheel/./wxtbx/phil_controls copying build/lib/wxtbx/phil_controls/space_group.py -> build/bdist.linux-x86_64/wheel/./wxtbx/phil_controls copying build/lib/wxtbx/phil_controls/array_label.py -> build/bdist.linux-x86_64/wheel/./wxtbx/phil_controls copying build/lib/wxtbx/phil_controls/numbers.py -> build/bdist.linux-x86_64/wheel/./wxtbx/phil_controls copying build/lib/wxtbx/phil_controls/text_base.py -> build/bdist.linux-x86_64/wheel/./wxtbx/phil_controls copying build/lib/wxtbx/phil_controls/strings.py -> build/bdist.linux-x86_64/wheel/./wxtbx/phil_controls copying build/lib/wxtbx/phil_controls/misc_ctrls.py -> build/bdist.linux-x86_64/wheel/./wxtbx/phil_controls copying build/lib/wxtbx/phil_controls/strctrl.py -> build/bdist.linux-x86_64/wheel/./wxtbx/phil_controls copying build/lib/wxtbx/phil_controls/choice.py -> build/bdist.linux-x86_64/wheel/./wxtbx/phil_controls copying build/lib/wxtbx/phil_controls/simple_dialogs.py -> build/bdist.linux-x86_64/wheel/./wxtbx/phil_controls copying build/lib/wxtbx/phil_controls/__init__.py -> build/bdist.linux-x86_64/wheel/./wxtbx/phil_controls copying build/lib/wxtbx/phil_controls/symop.py -> build/bdist.linux-x86_64/wheel/./wxtbx/phil_controls copying build/lib/wxtbx/phil_controls/ints.py -> build/bdist.linux-x86_64/wheel/./wxtbx/phil_controls copying build/lib/wxtbx/phil_controls/boolctrl.py -> build/bdist.linux-x86_64/wheel/./wxtbx/phil_controls copying build/lib/wxtbx/phil_controls/intctrl.py -> build/bdist.linux-x86_64/wheel/./wxtbx/phil_controls copying build/lib/wxtbx/phil_controls/floatctrl.py -> build/bdist.linux-x86_64/wheel/./wxtbx/phil_controls creating build/bdist.linux-x86_64/wheel/wxtbx/command_line copying build/lib/wxtbx/command_line/plan_sad_experiment.py -> build/bdist.linux-x86_64/wheel/./wxtbx/command_line copying build/lib/wxtbx/command_line/xtriage.py -> build/bdist.linux-x86_64/wheel/./wxtbx/command_line copying build/lib/wxtbx/command_line/plot_anomalous_scattering.py -> build/bdist.linux-x86_64/wheel/./wxtbx/command_line copying build/lib/wxtbx/command_line/anomalous_differences_histogram.py -> build/bdist.linux-x86_64/wheel/./wxtbx/command_line copying build/lib/wxtbx/command_line/show_file_info.py -> build/bdist.linux-x86_64/wheel/./wxtbx/command_line copying build/lib/wxtbx/command_line/pdb_statistics.py -> build/bdist.linux-x86_64/wheel/./wxtbx/command_line copying build/lib/wxtbx/command_line/loggraph.py -> build/bdist.linux-x86_64/wheel/./wxtbx/command_line copying build/lib/wxtbx/command_line/b_plot.py -> build/bdist.linux-x86_64/wheel/./wxtbx/command_line copying build/lib/wxtbx/command_line/__init__.py -> build/bdist.linux-x86_64/wheel/./wxtbx/command_line copying build/lib/wxtbx/command_line/pdb_editor.py -> build/bdist.linux-x86_64/wheel/./wxtbx/command_line copying build/lib/wxtbx/command_line/wxpython.py -> build/bdist.linux-x86_64/wheel/./wxtbx/command_line copying build/lib/wxtbx/command_line/inspect_r_free_flags.py -> build/bdist.linux-x86_64/wheel/./wxtbx/command_line copying build/lib/wxtbx/anomalous_scattering.py -> build/bdist.linux-x86_64/wheel/./wxtbx copying build/lib/wxtbx/bitmaps.py -> build/bdist.linux-x86_64/wheel/./wxtbx copying build/lib/wxtbx/metallicbutton.py -> build/bdist.linux-x86_64/wheel/./wxtbx copying build/lib/wxtbx/layout.py -> build/bdist.linux-x86_64/wheel/./wxtbx creating build/bdist.linux-x86_64/wheel/wxtbx/plots copying build/lib/wxtbx/plots/__init__.py -> build/bdist.linux-x86_64/wheel/./wxtbx/plots copying build/lib/wxtbx/plots/molprobity.py -> build/bdist.linux-x86_64/wheel/./wxtbx/plots copying build/lib/wxtbx/plots/emringer.py -> build/bdist.linux-x86_64/wheel/./wxtbx/plots copying build/lib/wxtbx/tables.py -> build/bdist.linux-x86_64/wheel/./wxtbx copying build/lib/wxtbx/adp_statistics.py -> build/bdist.linux-x86_64/wheel/./wxtbx copying build/lib/wxtbx/xtriage.py -> build/bdist.linux-x86_64/wheel/./wxtbx copying build/lib/wxtbx/windows.py -> build/bdist.linux-x86_64/wheel/./wxtbx copying build/lib/wxtbx/browser.py -> build/bdist.linux-x86_64/wheel/./wxtbx creating build/bdist.linux-x86_64/wheel/wxtbx/reports copying build/lib/wxtbx/reports/blast.py -> build/bdist.linux-x86_64/wheel/./wxtbx/reports copying build/lib/wxtbx/reports/pdb_symmetry.py -> build/bdist.linux-x86_64/wheel/./wxtbx/reports copying build/lib/wxtbx/reports/__init__.py -> build/bdist.linux-x86_64/wheel/./wxtbx/reports copying build/lib/wxtbx/monitor.py -> build/bdist.linux-x86_64/wheel/./wxtbx copying build/lib/wxtbx/custom_restraints.py -> build/bdist.linux-x86_64/wheel/./wxtbx copying build/lib/wxtbx/sequence_view.py -> build/bdist.linux-x86_64/wheel/./wxtbx copying build/lib/wxtbx/listeditor.py -> build/bdist.linux-x86_64/wheel/./wxtbx copying build/lib/wxtbx/ensemble_validation.py -> build/bdist.linux-x86_64/wheel/./wxtbx copying build/lib/wxtbx/segmentedctrl.py -> build/bdist.linux-x86_64/wheel/./wxtbx copying build/lib/wxtbx/process_control.py -> build/bdist.linux-x86_64/wheel/./wxtbx copying build/lib/wxtbx/wx4_compatibility.py -> build/bdist.linux-x86_64/wheel/./wxtbx copying build/lib/wxtbx/path_dialogs.py -> build/bdist.linux-x86_64/wheel/./wxtbx copying build/lib/wxtbx/symmetry_dialog.py -> build/bdist.linux-x86_64/wheel/./wxtbx copying build/lib/wxtbx/b_plot.py -> build/bdist.linux-x86_64/wheel/./wxtbx copying build/lib/wxtbx/qstat_view.py -> build/bdist.linux-x86_64/wheel/./wxtbx copying build/lib/wxtbx/heavy_atoms.py -> build/bdist.linux-x86_64/wheel/./wxtbx copying build/lib/wxtbx/__init__.py -> build/bdist.linux-x86_64/wheel/./wxtbx copying build/lib/wxtbx/mtz_dump.py -> build/bdist.linux-x86_64/wheel/./wxtbx copying build/lib/wxtbx/errors.py -> build/bdist.linux-x86_64/wheel/./wxtbx copying build/lib/wxtbx/pdb_editor.py -> build/bdist.linux-x86_64/wheel/./wxtbx copying build/lib/wxtbx/misc_dialogs.py -> build/bdist.linux-x86_64/wheel/./wxtbx copying build/lib/wxtbx/polygon.py -> build/bdist.linux-x86_64/wheel/./wxtbx copying build/lib/wxtbx/app.py -> build/bdist.linux-x86_64/wheel/./wxtbx copying build/lib/wxtbx/polygon_db_viewer.py -> build/bdist.linux-x86_64/wheel/./wxtbx copying build/lib/wxtbx/icons.py -> build/bdist.linux-x86_64/wheel/./wxtbx copying build/lib/wxtbx/info_panels.py -> build/bdist.linux-x86_64/wheel/./wxtbx copying build/lib/wxtbx/utils.py -> build/bdist.linux-x86_64/wheel/./wxtbx creating build/bdist.linux-x86_64/wheel/cma_es copying build/lib/cma_es/cma_es_interface.py -> build/bdist.linux-x86_64/wheel/./cma_es copying build/lib/cma_es/__init__.py -> build/bdist.linux-x86_64/wheel/./cma_es copying build/lib/cma_es/run_tests.py -> build/bdist.linux-x86_64/wheel/./cma_es copying build/lib/cma_es/tst_cma_es.py -> build/bdist.linux-x86_64/wheel/./cma_es creating build/bdist.linux-x86_64/wheel/boost_adaptbx creating build/bdist.linux-x86_64/wheel/boost_adaptbx/command_line copying build/lib/boost_adaptbx/command_line/show_platform_info.py -> build/bdist.linux-x86_64/wheel/./boost_adaptbx/command_line copying build/lib/boost_adaptbx/command_line/double_overflow.py -> build/bdist.linux-x86_64/wheel/./boost_adaptbx/command_line copying build/lib/boost_adaptbx/command_line/gcd.py -> build/bdist.linux-x86_64/wheel/./boost_adaptbx/command_line copying build/lib/boost_adaptbx/command_line/lcm.py -> build/bdist.linux-x86_64/wheel/./boost_adaptbx/command_line copying build/lib/boost_adaptbx/command_line/nested_cpp_loops_with_check_signals.py -> build/bdist.linux-x86_64/wheel/./boost_adaptbx/command_line copying build/lib/boost_adaptbx/command_line/divide_by_zero.py -> build/bdist.linux-x86_64/wheel/./boost_adaptbx/command_line copying build/lib/boost_adaptbx/command_line/int_overflow.py -> build/bdist.linux-x86_64/wheel/./boost_adaptbx/command_line copying build/lib/boost_adaptbx/command_line/inexact.py -> build/bdist.linux-x86_64/wheel/./boost_adaptbx/command_line copying build/lib/boost_adaptbx/command_line/segmentation_fault.py -> build/bdist.linux-x86_64/wheel/./boost_adaptbx/command_line copying build/lib/boost_adaptbx/command_line/__init__.py -> build/bdist.linux-x86_64/wheel/./boost_adaptbx/command_line copying build/lib/boost_adaptbx/command_line/show_environ_usage.py -> build/bdist.linux-x86_64/wheel/./boost_adaptbx/command_line creating build/bdist.linux-x86_64/wheel/boost_adaptbx/graph copying build/lib/boost_adaptbx/graph/min_cut_max_flow.py -> build/bdist.linux-x86_64/wheel/./boost_adaptbx/graph copying build/lib/boost_adaptbx/graph/graph_structure_comparison.py -> build/bdist.linux-x86_64/wheel/./boost_adaptbx/graph copying build/lib/boost_adaptbx/graph/connected_component_algorithm.py -> build/bdist.linux-x86_64/wheel/./boost_adaptbx/graph copying build/lib/boost_adaptbx/graph/metric.py -> build/bdist.linux-x86_64/wheel/./boost_adaptbx/graph copying build/lib/boost_adaptbx/graph/utility.py -> build/bdist.linux-x86_64/wheel/./boost_adaptbx/graph copying build/lib/boost_adaptbx/graph/breadth_first_search.py -> build/bdist.linux-x86_64/wheel/./boost_adaptbx/graph copying build/lib/boost_adaptbx/graph/maximum_clique.py -> build/bdist.linux-x86_64/wheel/./boost_adaptbx/graph copying build/lib/boost_adaptbx/graph/__init__.py -> build/bdist.linux-x86_64/wheel/./boost_adaptbx/graph copying build/lib/boost_adaptbx/graph/clustering_algorithm.py -> build/bdist.linux-x86_64/wheel/./boost_adaptbx/graph copying build/lib/boost_adaptbx/graph/minimum_cut_enumerate.py -> build/bdist.linux-x86_64/wheel/./boost_adaptbx/graph copying build/lib/boost_adaptbx/hybrid_times.py -> build/bdist.linux-x86_64/wheel/./boost_adaptbx creating build/bdist.linux-x86_64/wheel/boost_adaptbx/boost copying build/lib/boost_adaptbx/boost/tuple.py -> build/bdist.linux-x86_64/wheel/./boost_adaptbx/boost copying build/lib/boost_adaptbx/boost/optional.py -> build/bdist.linux-x86_64/wheel/./boost_adaptbx/boost copying build/lib/boost_adaptbx/boost/std_pair.py -> build/bdist.linux-x86_64/wheel/./boost_adaptbx/boost copying build/lib/boost_adaptbx/boost/python.py -> build/bdist.linux-x86_64/wheel/./boost_adaptbx/boost copying build/lib/boost_adaptbx/boost/__init__.py -> build/bdist.linux-x86_64/wheel/./boost_adaptbx/boost copying build/lib/boost_adaptbx/boost/rational.py -> build/bdist.linux-x86_64/wheel/./boost_adaptbx/boost copying build/lib/boost_adaptbx/__init__.py -> build/bdist.linux-x86_64/wheel/./boost_adaptbx copying build/lib/boost_adaptbx/run_tests.py -> build/bdist.linux-x86_64/wheel/./boost_adaptbx copying build/lib/boost_adaptbx/libtbx_refresh.py -> build/bdist.linux-x86_64/wheel/./boost_adaptbx creating build/bdist.linux-x86_64/wheel/gltbx creating build/bdist.linux-x86_64/wheel/gltbx/command_line copying build/lib/gltbx/command_line/try_imports.py -> build/bdist.linux-x86_64/wheel/./gltbx/command_line copying build/lib/gltbx/command_line/__init__.py -> build/bdist.linux-x86_64/wheel/./gltbx/command_line copying build/lib/gltbx/wx_scene.py -> build/bdist.linux-x86_64/wheel/./gltbx copying build/lib/gltbx/viewer_utils.py -> build/bdist.linux-x86_64/wheel/./gltbx copying build/lib/gltbx/wx_motion_on_tab.py -> build/bdist.linux-x86_64/wheel/./gltbx copying build/lib/gltbx/gl.py -> build/bdist.linux-x86_64/wheel/./gltbx copying build/lib/gltbx/images.py -> build/bdist.linux-x86_64/wheel/./gltbx copying build/lib/gltbx/generate_functions_bpl.py -> build/bdist.linux-x86_64/wheel/./gltbx copying build/lib/gltbx/wx_viewers_images.py -> build/bdist.linux-x86_64/wheel/./gltbx copying build/lib/gltbx/wx_viewer_example.py -> build/bdist.linux-x86_64/wheel/./gltbx copying build/lib/gltbx/generate_defines_bpl.py -> build/bdist.linux-x86_64/wheel/./gltbx copying build/lib/gltbx/glu.py -> build/bdist.linux-x86_64/wheel/./gltbx copying build/lib/gltbx/wx_cube.py -> build/bdist.linux-x86_64/wheel/./gltbx copying build/lib/gltbx/fonts.py -> build/bdist.linux-x86_64/wheel/./gltbx copying build/lib/gltbx/util.py -> build/bdist.linux-x86_64/wheel/./gltbx copying build/lib/gltbx/extract_opengl_specs.py -> build/bdist.linux-x86_64/wheel/./gltbx copying build/lib/gltbx/tst_fonts.py -> build/bdist.linux-x86_64/wheel/./gltbx copying build/lib/gltbx/wx_viewer.py -> build/bdist.linux-x86_64/wheel/./gltbx copying build/lib/gltbx/__init__.py -> build/bdist.linux-x86_64/wheel/./gltbx copying build/lib/gltbx/generate_fonts_ucs_cpp.py -> build/bdist.linux-x86_64/wheel/./gltbx copying build/lib/gltbx/quadrics.py -> build/bdist.linux-x86_64/wheel/./gltbx copying build/lib/gltbx/run_tests.py -> build/bdist.linux-x86_64/wheel/./gltbx copying build/lib/gltbx/gl_managed.py -> build/bdist.linux-x86_64/wheel/./gltbx copying build/lib/gltbx/wx_viewer_leapmotion.py -> build/bdist.linux-x86_64/wheel/./gltbx copying build/lib/gltbx/tst.py -> build/bdist.linux-x86_64/wheel/./gltbx copying build/lib/gltbx/tst_ellipsoids.py -> build/bdist.linux-x86_64/wheel/./gltbx copying build/lib/gltbx/tst_viewer_utils.py -> build/bdist.linux-x86_64/wheel/./gltbx copying build/lib/gltbx/libtbx_refresh.py -> build/bdist.linux-x86_64/wheel/./gltbx copying build/lib/gltbx/wx_ellipsoids_test.py -> build/bdist.linux-x86_64/wheel/./gltbx creating build/bdist.linux-x86_64/wheel/mmtbx creating build/bdist.linux-x86_64/wheel/mmtbx/command_line copying build/lib/mmtbx/command_line/rna_validate_bonds.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/model_vs_map.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/fmodel.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/remove_outliers.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/rotalyze.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/model_model_distances.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/pdbtools.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/distance_difference.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/density_modification.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/models_as_chains.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/super.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/barbed_wire_analysis.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/arginine_geometry.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/rama_z.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/suitename.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/polder.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/model_vs_sequence.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/reciprocal_space_arrays.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/cif_as_mtz.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/reduce_cryoem_resolution.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/plan_sad_experiment.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/rebuild_rotarama_cache.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/comparama.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/ringer.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/mask.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/hbond.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/xmanip.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/sisa.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/fetch_pdb.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/chiral_validation.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/verify_mon_lib_data.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/mon_lib_cif_triage.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/cbetadev.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/map_to_model_histogram.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/xtrapol8.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/search_pdb_symmetry.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/taam_minus_iam.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/cablam.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/xtriage.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/model_idealization.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/mtz2map.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/undowser2.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/prune_model.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/model_vs_data.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/mp_validate_bonds.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/table_one.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/select_best_starting_model.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/tls_analysis.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/atom_valence_simple.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/dynamics.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/maximum_entropy_map.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/validate_H_cl_app.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/helix_sheet_recs_as_pdb_files.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/ligand_restraints_validation.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/clashscore.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/suitename_old.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/fobs_minus_fobs_map.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/find_peaks_holes.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/secondary_structure_restraints.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/ramalyze.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/cc_star.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/sort_hetatms.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/geometry_minimization.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/water_b_factors.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/emringer_score.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/debug_riding.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/holton_geometry_validation.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/apply_ncs_to_ligand.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/rebuild_cablam_cache.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/next_gen_atom_typing.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/maps.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/ss_idealization.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/where_is_that_cif_file.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/process_predicted_model.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/angle.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/probe2.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/ribbons.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/perigee.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/altloc_remediate.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/f000.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/electrons.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/reduce2.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/development_aev.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/rigid_bond_test.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/massage_data.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/fab_elbow_angle.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/undowser.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/rna_validate_suites.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/grow_density.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/hydrogenate.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/probescore_ligand.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/real_space_diff_map.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/quantum_interface.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/map_comparison.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/find_tls_groups.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/matthews.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/pdb_interpretation.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/fake_f_obs.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/rank_scale_map.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/estimate_bijvoet_ratio.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/tls_as_xyz.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/real_space_correlation.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/superpose.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/cablam_idealization.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/refine_anomalous_substructure.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/show_r_factors_by_shell.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/rna_validate_puckers.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/molprobity.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/clashscore2.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/pdb_atom_selection.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/mp_geo.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/kinemage.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/development_fem.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/map_box.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/validate_ligands.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/r_factor_statistics.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/secondary_structure_validation.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/find_residue_in_pdb.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/rna_validate.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/validation_summary.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/model_map.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/prepare_pdb_deposition.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/tls.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/nonbonded_overlaps.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/map_to_structure_factors.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/emringer.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/omegalyze.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line creating build/bdist.linux-x86_64/wheel/mmtbx/rotamer copying build/lib/mmtbx/rotamer/n_dim_table.py -> build/bdist.linux-x86_64/wheel/./mmtbx/rotamer copying build/lib/mmtbx/rotamer/nqh.py -> build/bdist.linux-x86_64/wheel/./mmtbx/rotamer copying build/lib/mmtbx/rotamer/ramachandran_eval.py -> build/bdist.linux-x86_64/wheel/./mmtbx/rotamer copying build/lib/mmtbx/rotamer/ramachandran_eval_deprecated.py -> build/bdist.linux-x86_64/wheel/./mmtbx/rotamer copying build/lib/mmtbx/rotamer/tst_geostd_vs_sidechain_angles_props.py -> build/bdist.linux-x86_64/wheel/./mmtbx/rotamer copying build/lib/mmtbx/rotamer/rotamer_eval.py -> build/bdist.linux-x86_64/wheel/./mmtbx/rotamer copying build/lib/mmtbx/rotamer/tst_rotamer_eval.py -> build/bdist.linux-x86_64/wheel/./mmtbx/rotamer copying build/lib/mmtbx/rotamer/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/rotamer copying build/lib/mmtbx/rotamer/graphics.py -> build/bdist.linux-x86_64/wheel/./mmtbx/rotamer copying build/lib/mmtbx/rotamer/sidechain_angles.py -> build/bdist.linux-x86_64/wheel/./mmtbx/rotamer copying build/lib/mmtbx/map_tools.py -> build/bdist.linux-x86_64/wheel/./mmtbx copying build/lib/mmtbx/pdbtools.py -> build/bdist.linux-x86_64/wheel/./mmtbx creating build/bdist.linux-x86_64/wheel/mmtbx/den copying build/lib/mmtbx/den/refinement.py -> build/bdist.linux-x86_64/wheel/./mmtbx/den copying build/lib/mmtbx/den/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/den copying build/lib/mmtbx/den/plot_weights.py -> build/bdist.linux-x86_64/wheel/./mmtbx/den creating build/bdist.linux-x86_64/wheel/mmtbx/twinning copying build/lib/mmtbx/twinning/probabalistic_detwinning.py -> build/bdist.linux-x86_64/wheel/./mmtbx/twinning copying build/lib/mmtbx/twinning/twin_f_model.py -> build/bdist.linux-x86_64/wheel/./mmtbx/twinning copying build/lib/mmtbx/twinning/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/twinning copying build/lib/mmtbx/resolve_resources.py -> build/bdist.linux-x86_64/wheel/./mmtbx creating build/bdist.linux-x86_64/wheel/mmtbx/masks copying build/lib/mmtbx/masks/tst_masks.py -> build/bdist.linux-x86_64/wheel/./mmtbx/masks copying build/lib/mmtbx/masks/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/masks copying build/lib/mmtbx/masks/tst_asu_mask.py -> build/bdist.linux-x86_64/wheel/./mmtbx/masks creating build/bdist.linux-x86_64/wheel/mmtbx/probe copying build/lib/mmtbx/probe/tst_mmtbx_probe_ext.py -> build/bdist.linux-x86_64/wheel/./mmtbx/probe copying build/lib/mmtbx/probe/CompareOriginalAndNewProbeAtomInfo.py -> build/bdist.linux-x86_64/wheel/./mmtbx/probe copying build/lib/mmtbx/probe/Helpers.py -> build/bdist.linux-x86_64/wheel/./mmtbx/probe copying build/lib/mmtbx/probe/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/probe copying build/lib/mmtbx/probe/AtomTypes.py -> build/bdist.linux-x86_64/wheel/./mmtbx/probe creating build/bdist.linux-x86_64/wheel/mmtbx/solvent copying build/lib/mmtbx/solvent/map_to_water.py -> build/bdist.linux-x86_64/wheel/./mmtbx/solvent copying build/lib/mmtbx/solvent/ordered_solvent.py -> build/bdist.linux-x86_64/wheel/./mmtbx/solvent copying build/lib/mmtbx/solvent/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/solvent copying build/lib/mmtbx/solvent/ensemble_ordered_solvent.py -> build/bdist.linux-x86_64/wheel/./mmtbx/solvent creating build/bdist.linux-x86_64/wheel/mmtbx/reduce copying build/lib/mmtbx/reduce/InteractionGraph.py -> build/bdist.linux-x86_64/wheel/./mmtbx/reduce copying build/lib/mmtbx/reduce/Movers.py -> build/bdist.linux-x86_64/wheel/./mmtbx/reduce copying build/lib/mmtbx/reduce/tst_mmtbx_reduce_ext.py -> build/bdist.linux-x86_64/wheel/./mmtbx/reduce copying build/lib/mmtbx/reduce/Optimizers.py -> build/bdist.linux-x86_64/wheel/./mmtbx/reduce copying build/lib/mmtbx/reduce/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/reduce copying build/lib/mmtbx/xmanip.py -> build/bdist.linux-x86_64/wheel/./mmtbx creating build/bdist.linux-x86_64/wheel/mmtbx/atomic_environment_vectors copying build/lib/mmtbx/atomic_environment_vectors/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/atomic_environment_vectors copying build/lib/mmtbx/atomic_environment_vectors/tst.py -> build/bdist.linux-x86_64/wheel/./mmtbx/atomic_environment_vectors copying build/lib/mmtbx/msa.py -> build/bdist.linux-x86_64/wheel/./mmtbx creating build/bdist.linux-x86_64/wheel/mmtbx/maps copying build/lib/mmtbx/maps/map_model_cc.py -> build/bdist.linux-x86_64/wheel/./mmtbx/maps copying build/lib/mmtbx/maps/polder.py -> build/bdist.linux-x86_64/wheel/./mmtbx/maps copying build/lib/mmtbx/maps/xtrapol8.py -> build/bdist.linux-x86_64/wheel/./mmtbx/maps copying build/lib/mmtbx/maps/fem.py -> build/bdist.linux-x86_64/wheel/./mmtbx/maps copying build/lib/mmtbx/maps/fobs_minus_fobs_map.py -> build/bdist.linux-x86_64/wheel/./mmtbx/maps copying build/lib/mmtbx/maps/tst_correlation.py -> build/bdist.linux-x86_64/wheel/./mmtbx/maps copying build/lib/mmtbx/maps/tst_composite_omit_map_3.py -> build/bdist.linux-x86_64/wheel/./mmtbx/maps copying build/lib/mmtbx/maps/tst_composite_omit_map.py -> build/bdist.linux-x86_64/wheel/./mmtbx/maps copying build/lib/mmtbx/maps/correlation.py -> build/bdist.linux-x86_64/wheel/./mmtbx/maps copying build/lib/mmtbx/maps/kick.py -> build/bdist.linux-x86_64/wheel/./mmtbx/maps copying build/lib/mmtbx/maps/composite_omit_map.py -> build/bdist.linux-x86_64/wheel/./mmtbx/maps copying build/lib/mmtbx/maps/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/maps copying build/lib/mmtbx/maps/superpose.py -> build/bdist.linux-x86_64/wheel/./mmtbx/maps copying build/lib/mmtbx/maps/tst_composite_omit_map_2.py -> build/bdist.linux-x86_64/wheel/./mmtbx/maps copying build/lib/mmtbx/maps/tst_map_model_cc_and_vals_per_atom_xtal.py -> build/bdist.linux-x86_64/wheel/./mmtbx/maps copying build/lib/mmtbx/maps/mtriage.py -> build/bdist.linux-x86_64/wheel/./mmtbx/maps copying build/lib/mmtbx/maps/utils.py -> build/bdist.linux-x86_64/wheel/./mmtbx/maps creating build/bdist.linux-x86_64/wheel/mmtbx/secondary_structure copying build/lib/mmtbx/secondary_structure/tst_segid.py -> build/bdist.linux-x86_64/wheel/./mmtbx/secondary_structure copying build/lib/mmtbx/secondary_structure/secondary_structure_params.py -> build/bdist.linux-x86_64/wheel/./mmtbx/secondary_structure copying build/lib/mmtbx/secondary_structure/ss_validation.py -> build/bdist.linux-x86_64/wheel/./mmtbx/secondary_structure copying build/lib/mmtbx/secondary_structure/regularize_from_pdb.py -> build/bdist.linux-x86_64/wheel/./mmtbx/secondary_structure copying build/lib/mmtbx/secondary_structure/tst_insertion_codes.py -> build/bdist.linux-x86_64/wheel/./mmtbx/secondary_structure copying build/lib/mmtbx/secondary_structure/nucleic_acids.py -> build/bdist.linux-x86_64/wheel/./mmtbx/secondary_structure copying build/lib/mmtbx/secondary_structure/find_ss_from_ca.py -> build/bdist.linux-x86_64/wheel/./mmtbx/secondary_structure copying build/lib/mmtbx/secondary_structure/proteins.py -> build/bdist.linux-x86_64/wheel/./mmtbx/secondary_structure copying build/lib/mmtbx/secondary_structure/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/secondary_structure copying build/lib/mmtbx/secondary_structure/tst.py -> build/bdist.linux-x86_64/wheel/./mmtbx/secondary_structure creating build/bdist.linux-x86_64/wheel/mmtbx/secondary_structure/build copying build/lib/mmtbx/secondary_structure/build/tst_1.py -> build/bdist.linux-x86_64/wheel/./mmtbx/secondary_structure/build copying build/lib/mmtbx/secondary_structure/build/tst_ss_id_ncs.py -> build/bdist.linux-x86_64/wheel/./mmtbx/secondary_structure/build copying build/lib/mmtbx/secondary_structure/build/tst_2.py -> build/bdist.linux-x86_64/wheel/./mmtbx/secondary_structure/build copying build/lib/mmtbx/secondary_structure/build/ss_idealization.py -> build/bdist.linux-x86_64/wheel/./mmtbx/secondary_structure/build copying build/lib/mmtbx/secondary_structure/build/tst_3.py -> build/bdist.linux-x86_64/wheel/./mmtbx/secondary_structure/build copying build/lib/mmtbx/secondary_structure/build/tst_io.py -> build/bdist.linux-x86_64/wheel/./mmtbx/secondary_structure/build copying build/lib/mmtbx/secondary_structure/build/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/secondary_structure/build copying build/lib/mmtbx/secondary_structure/utils.py -> build/bdist.linux-x86_64/wheel/./mmtbx/secondary_structure copying build/lib/mmtbx/pdb_symmetry.py -> build/bdist.linux-x86_64/wheel/./mmtbx copying build/lib/mmtbx/lattice.py -> build/bdist.linux-x86_64/wheel/./mmtbx creating build/bdist.linux-x86_64/wheel/mmtbx/chemical_components copying build/lib/mmtbx/chemical_components/cif_parser.py -> build/bdist.linux-x86_64/wheel/./mmtbx/chemical_components copying build/lib/mmtbx/chemical_components/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/chemical_components copying build/lib/mmtbx/chemical_components/tst.py -> build/bdist.linux-x86_64/wheel/./mmtbx/chemical_components copying build/lib/mmtbx/model_vs_data.py -> build/bdist.linux-x86_64/wheel/./mmtbx creating build/bdist.linux-x86_64/wheel/mmtbx/geometry copying build/lib/mmtbx/geometry/asa.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry copying build/lib/mmtbx/geometry/topology.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry copying build/lib/mmtbx/geometry/sphere_surface_sampling.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry copying build/lib/mmtbx/geometry/indexing.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry copying build/lib/mmtbx/geometry/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry copying build/lib/mmtbx/geometry/clash.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry copying build/lib/mmtbx/geometry/shared_types.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry copying build/lib/mmtbx/geometry/altloc.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry creating build/bdist.linux-x86_64/wheel/mmtbx/sisa creating build/bdist.linux-x86_64/wheel/mmtbx/sisa/optimize copying build/lib/mmtbx/sisa/optimize/mod_masks.py -> build/bdist.linux-x86_64/wheel/./mmtbx/sisa/optimize copying build/lib/mmtbx/sisa/optimize/mod_ga.py -> build/bdist.linux-x86_64/wheel/./mmtbx/sisa/optimize copying build/lib/mmtbx/sisa/optimize/mod_input.py -> build/bdist.linux-x86_64/wheel/./mmtbx/sisa/optimize copying build/lib/mmtbx/sisa/optimize/mod_util.py -> build/bdist.linux-x86_64/wheel/./mmtbx/sisa/optimize copying build/lib/mmtbx/sisa/optimize/mod_mtz.py -> build/bdist.linux-x86_64/wheel/./mmtbx/sisa/optimize copying build/lib/mmtbx/sisa/optimize/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/sisa/optimize copying build/lib/mmtbx/sisa/optimize/mod_optimize.py -> build/bdist.linux-x86_64/wheel/./mmtbx/sisa/optimize copying build/lib/mmtbx/sisa/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/sisa copying build/lib/mmtbx/proq2.py -> build/bdist.linux-x86_64/wheel/./mmtbx creating build/bdist.linux-x86_64/wheel/mmtbx/idealized_aa_residues copying build/lib/mmtbx/idealized_aa_residues/all_his.py -> build/bdist.linux-x86_64/wheel/./mmtbx/idealized_aa_residues copying build/lib/mmtbx/idealized_aa_residues/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/idealized_aa_residues copying build/lib/mmtbx/idealized_aa_residues/rotamer_manager.py -> build/bdist.linux-x86_64/wheel/./mmtbx/idealized_aa_residues copying build/lib/mmtbx/idealized_aa_residues/sample_rotamers.py -> build/bdist.linux-x86_64/wheel/./mmtbx/idealized_aa_residues copying build/lib/mmtbx/idealized_aa_residues/tst.py -> build/bdist.linux-x86_64/wheel/./mmtbx/idealized_aa_residues copying build/lib/mmtbx/pdb_distances.py -> build/bdist.linux-x86_64/wheel/./mmtbx creating build/bdist.linux-x86_64/wheel/mmtbx/tls copying build/lib/mmtbx/tls/perm14.py -> build/bdist.linux-x86_64/wheel/./mmtbx/tls copying build/lib/mmtbx/tls/perm12.py -> build/bdist.linux-x86_64/wheel/./mmtbx/tls copying build/lib/mmtbx/tls/decompose.py -> build/bdist.linux-x86_64/wheel/./mmtbx/tls copying build/lib/mmtbx/tls/perm10.py -> build/bdist.linux-x86_64/wheel/./mmtbx/tls copying build/lib/mmtbx/tls/perm13.py -> build/bdist.linux-x86_64/wheel/./mmtbx/tls copying build/lib/mmtbx/tls/perm11.py -> build/bdist.linux-x86_64/wheel/./mmtbx/tls copying build/lib/mmtbx/tls/ladp.py -> build/bdist.linux-x86_64/wheel/./mmtbx/tls copying build/lib/mmtbx/tls/perm15.py -> build/bdist.linux-x86_64/wheel/./mmtbx/tls copying build/lib/mmtbx/tls/optimise_amplitudes.py -> build/bdist.linux-x86_64/wheel/./mmtbx/tls copying build/lib/mmtbx/tls/tools.py -> build/bdist.linux-x86_64/wheel/./mmtbx/tls copying build/lib/mmtbx/tls/analysis.py -> build/bdist.linux-x86_64/wheel/./mmtbx/tls copying build/lib/mmtbx/tls/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/tls copying build/lib/mmtbx/tls/tls_as_xyz.py -> build/bdist.linux-x86_64/wheel/./mmtbx/tls copying build/lib/mmtbx/tls/command_line.py -> build/bdist.linux-x86_64/wheel/./mmtbx/tls copying build/lib/mmtbx/tls/utils.py -> build/bdist.linux-x86_64/wheel/./mmtbx/tls creating build/bdist.linux-x86_64/wheel/mmtbx/f_model copying build/lib/mmtbx/f_model/f_model.py -> build/bdist.linux-x86_64/wheel/./mmtbx/f_model copying build/lib/mmtbx/f_model/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/f_model copying build/lib/mmtbx/f_model/f_model_info.py -> build/bdist.linux-x86_64/wheel/./mmtbx/f_model creating build/bdist.linux-x86_64/wheel/mmtbx/ions copying build/lib/mmtbx/ions/tst_pick_k.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ions copying build/lib/mmtbx/ions/environment.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ions copying build/lib/mmtbx/ions/tst_geometries.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ions copying build/lib/mmtbx/ions/tst_parameters.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ions copying build/lib/mmtbx/ions/tst_utils.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ions copying build/lib/mmtbx/ions/tst_pick_ca.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ions copying build/lib/mmtbx/ions/tst_validate_ca.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ions copying build/lib/mmtbx/ions/tst_pick_ca_svm.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ions copying build/lib/mmtbx/ions/tst_environment.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ions copying build/lib/mmtbx/ions/tst_pick_approx_zn.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ions copying build/lib/mmtbx/ions/halides.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ions copying build/lib/mmtbx/ions/tst_validate_mg.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ions copying build/lib/mmtbx/ions/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ions copying build/lib/mmtbx/ions/tst_pick_mg.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ions copying build/lib/mmtbx/ions/geometry.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ions copying build/lib/mmtbx/ions/tst_pickle.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ions copying build/lib/mmtbx/ions/identify.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ions copying build/lib/mmtbx/ions/build.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ions copying build/lib/mmtbx/ions/tst_symmetry_axis.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ions creating build/bdist.linux-x86_64/wheel/mmtbx/ions/svm copying build/lib/mmtbx/ions/svm/dump_sites.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ions/svm copying build/lib/mmtbx/ions/svm/tst_classifier_01.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ions/svm copying build/lib/mmtbx/ions/svm/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ions/svm copying build/lib/mmtbx/ions/svm/tst_classifier_02.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ions/svm copying build/lib/mmtbx/ions/svm/utils.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ions/svm copying build/lib/mmtbx/ions/utils.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ions creating build/bdist.linux-x86_64/wheel/mmtbx/density_modification copying build/lib/mmtbx/density_modification/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/density_modification copying build/lib/mmtbx/density_modification/tst_density_modification.py -> build/bdist.linux-x86_64/wheel/./mmtbx/density_modification creating build/bdist.linux-x86_64/wheel/mmtbx/polygon copying build/lib/mmtbx/polygon/tst_polygon_data.py -> build/bdist.linux-x86_64/wheel/./mmtbx/polygon copying build/lib/mmtbx/polygon/tst_gui.py -> build/bdist.linux-x86_64/wheel/./mmtbx/polygon copying build/lib/mmtbx/polygon/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/polygon copying build/lib/mmtbx/polygon/output.py -> build/bdist.linux-x86_64/wheel/./mmtbx/polygon copying build/lib/mmtbx/polygon/tst.py -> build/bdist.linux-x86_64/wheel/./mmtbx/polygon creating build/bdist.linux-x86_64/wheel/mmtbx/regression copying build/lib/mmtbx/regression/tst_clashes.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_polder_box.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_anomalous_substructure.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_find_ncs.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_mtz2map.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_polder_1.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_cif_as_mtz_wavelengths.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_altloc_chain_break.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_table_one.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_apply_cif_restraints.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_model_vs_sequence.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_multi_residue_class.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_reduce.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_process_predicted_model.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_validation_summary.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_metal_link_1.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_maps_misc.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_origin_ids.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_arginine_geometry.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_command_line_input.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_cc_star.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_mmtbx_refinement_wrappers_1.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_fmodel_2.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_find_ss_structure_cif.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_fmodel_fd.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_sampled_model_density.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_rigid_bond_test.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_refine_anomalous_substructure.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_reduce_timeout.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/make_fake_anomalous_data.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_validate_ligands_2.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_msa.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_schrodinger_interface.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_geo_min_restraints_phil.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_adp_restraints.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_utils.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_domains_from_pae.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression creating build/bdist.linux-x86_64/wheel/mmtbx/regression/tls copying build/lib/mmtbx/regression/tls/tst_u_tls_vs_u_ens_01.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/tls copying build/lib/mmtbx/regression/tls/tst_u_tls_vs_u_ens_00.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/tls copying build/lib/mmtbx/regression/tls/tst_tls_as_xyz.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/tls copying build/lib/mmtbx/regression/tls/tst_u_tls_vs_u_ens_03.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/tls copying build/lib/mmtbx/regression/tls/tst_tls_utils.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/tls copying build/lib/mmtbx/regression/tls/tst_u_tls_vs_u_ens_04.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/tls copying build/lib/mmtbx/regression/tls/tst_u_tls_vs_u_ens_02.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/tls copying build/lib/mmtbx/regression/tls/tst_get_t_scheme.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/tls copying build/lib/mmtbx/regression/tls/tst_tls_analysis.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/tls copying build/lib/mmtbx/regression/tls/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/tls copying build/lib/mmtbx/regression/tls/tst_tls_refinement_fft.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/tls copying build/lib/mmtbx/regression/tls/tst_formula_t_S_10_vs_11_4muy.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/tls copying build/lib/mmtbx/regression/tls/tst_tls.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/tls copying build/lib/mmtbx/regression/tls/tst_formula_t_S_10_vs_11_2igd.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/tls copying build/lib/mmtbx/regression/tls/tst_tls_optimise_amplitudes.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/tls copying build/lib/mmtbx/regression/tst_fmodel_no_cryst1.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_mmtbx_refinement_wrappers_2.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_ribbons.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_geometry_minimization.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_regularize_from_pdb.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_isomorphous_difference_misc.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_fmodel_misc.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_special_term_at_end.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_polder_ccs.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_polder_2.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_add_h_to_water.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_models_to_from_chains.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_process_predicted_model_cif.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_helix_sheet_recs_as_pdb_files.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_mmtbx_refinement_wrappers.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_reduce_cryoem_resolution.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_polder.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_prune_model.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_loop_closure.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_fmodel_and_dm.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_regularize_from_pdb_cif.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression creating build/bdist.linux-x86_64/wheel/mmtbx/regression/model copying build/lib/mmtbx/regression/model/tst_restrain_selection_to_self_or_neighbors.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/model copying build/lib/mmtbx/regression/model/tst_model_utils_merge_models.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/model copying build/lib/mmtbx/regression/model/tst_model_2.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/model copying build/lib/mmtbx/regression/model/tst_model_merge.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/model copying build/lib/mmtbx/regression/model/tst_model_remove_alternative_conformations.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/model copying build/lib/mmtbx/regression/model/tst_model_dedeuterate.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/model copying build/lib/mmtbx/regression/model/tst_model_cart_ref_restraints.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/model copying build/lib/mmtbx/regression/model/tst_model_neutralize_scatterers.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/model copying build/lib/mmtbx/regression/model/tst_model_biomt_mtrix.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/model copying build/lib/mmtbx/regression/model/tst_model_biomt_mtrix_2.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/model copying build/lib/mmtbx/regression/model/tst_model_ramachandran.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/model copying build/lib/mmtbx/regression/model/tst_model.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/model copying build/lib/mmtbx/regression/model/tst_model_symmetry.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/model copying build/lib/mmtbx/regression/model/tst_model_pairs_within.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/model copying build/lib/mmtbx/regression/model/tst_model_mtrix.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/model copying build/lib/mmtbx/regression/model/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/model copying build/lib/mmtbx/regression/model/tst_model_get_vdw_radii.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/model copying build/lib/mmtbx/regression/model/tst_model_set_hydrogen_bond_length.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/model copying build/lib/mmtbx/regression/model/tst_model_ncs.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/model copying build/lib/mmtbx/regression/model/tst_model_tors_ref_restraints.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/model copying build/lib/mmtbx/regression/tst_altloc_remediate.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_probe.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_map_model_cc.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_find_ss_structure.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_rank_scale_map.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_chain_comparison.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_polder_4.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_examples.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_sequence_validation.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_scattering_type_registry.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_add_arrows_on_plot.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_scattering_table.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_flipping_his.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_dynamics_cli.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_polder_3.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_alignment.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_real_space_correlation.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_model_vs_map.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_chain_comparison_cif.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_angle.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_ligand_ncs.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_fmodel.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_sort_hetatms.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression creating build/bdist.linux-x86_64/wheel/mmtbx/regression/ncs copying build/lib/mmtbx/regression/ncs/tst_ncs_search_flips.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/ncs copying build/lib/mmtbx/regression/ncs/tst_geometry_minimization_ncs_constraints.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/ncs copying build/lib/mmtbx/regression/ncs/tst_restraints.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/ncs copying build/lib/mmtbx/regression/ncs/tst_ncs_utils.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/ncs copying build/lib/mmtbx/regression/ncs/tst_ncs_search.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/ncs copying build/lib/mmtbx/regression/ncs/tst_minimization_ncs_constraints_real_space.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/ncs copying build/lib/mmtbx/regression/ncs/tst_minimization_ncs_constraints.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/ncs copying build/lib/mmtbx/regression/ncs/tst_minimization_ncs_constraints3.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/ncs copying build/lib/mmtbx/regression/ncs/tst_ncs_restraints_group_list.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/ncs copying build/lib/mmtbx/regression/ncs/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/ncs copying build/lib/mmtbx/regression/ncs/tst_minimization_ncs_constraints2.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/ncs copying build/lib/mmtbx/regression/tst_domains_from_pae_cif.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_map_type_parser.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_holton_geometry_validation.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_validate_ligands.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_cis_trans_peptide_link.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_psi_phi_extraction.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_minimize_chain.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_ml_estimate.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_rdkit_utils_fragmentation.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_statistics_output.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_model_map.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_ringer.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_pdbtools.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_lrv.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_superpose.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression creating build/bdist.linux-x86_64/wheel/mmtbx/geometry_restraints copying build/lib/mmtbx/geometry_restraints/quantum_restraints_manager.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry_restraints copying build/lib/mmtbx/geometry_restraints/tst_c_beta_restraints.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry_restraints copying build/lib/mmtbx/geometry_restraints/tst_manager.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry_restraints copying build/lib/mmtbx/geometry_restraints/tst_geo_file_parsing.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry_restraints creating build/bdist.linux-x86_64/wheel/mmtbx/geometry_restraints/torsion_restraints copying build/lib/mmtbx/geometry_restraints/torsion_restraints/tst_reference_model.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry_restraints/torsion_restraints copying build/lib/mmtbx/geometry_restraints/torsion_restraints/rotamer_search.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry_restraints/torsion_restraints copying build/lib/mmtbx/geometry_restraints/torsion_restraints/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry_restraints/torsion_restraints copying build/lib/mmtbx/geometry_restraints/torsion_restraints/tst_reference_model_ligands.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry_restraints/torsion_restraints copying build/lib/mmtbx/geometry_restraints/torsion_restraints/tst_torsion_ncs.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry_restraints/torsion_restraints copying build/lib/mmtbx/geometry_restraints/torsion_restraints/torsion_ncs.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry_restraints/torsion_restraints copying build/lib/mmtbx/geometry_restraints/torsion_restraints/reference_model.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry_restraints/torsion_restraints copying build/lib/mmtbx/geometry_restraints/torsion_restraints/utils.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry_restraints/torsion_restraints copying build/lib/mmtbx/geometry_restraints/qm_manager.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry_restraints copying build/lib/mmtbx/geometry_restraints/tst_ramachandran.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry_restraints copying build/lib/mmtbx/geometry_restraints/tst_reference_coordinate2.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry_restraints copying build/lib/mmtbx/geometry_restraints/external.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry_restraints copying build/lib/mmtbx/geometry_restraints/reference.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry_restraints copying build/lib/mmtbx/geometry_restraints/c_beta.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry_restraints copying build/lib/mmtbx/geometry_restraints/mopac_manager.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry_restraints copying build/lib/mmtbx/geometry_restraints/geo_file_parsing.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry_restraints copying build/lib/mmtbx/geometry_restraints/base_qm_manager.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry_restraints copying build/lib/mmtbx/geometry_restraints/quantum_interface.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry_restraints copying build/lib/mmtbx/geometry_restraints/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry_restraints copying build/lib/mmtbx/geometry_restraints/afitt.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry_restraints copying build/lib/mmtbx/geometry_restraints/tst_reference_coordinate.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry_restraints copying build/lib/mmtbx/geometry_restraints/ramachandran.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry_restraints copying build/lib/mmtbx/geometry_restraints/qi_utils.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry_restraints copying build/lib/mmtbx/geometry_restraints/orca_manager.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry_restraints creating build/bdist.linux-x86_64/wheel/mmtbx/scaling copying build/lib/mmtbx/scaling/remove_outliers.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/bayesian_estimator.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/relative_wilson.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/tst_xtriage_twin_analyses.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/relative_scaling.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/plan_sad_experiment.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/pair_analyses.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/twin_analyses.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/xtriage.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/pre_scale.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/sigmaa_estimation.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/thorough_outlier_test.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/tst_scaling.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/absence_likelihood.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/tst_outlier.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/massage_twin_detwin_data.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/tst_sigmaa.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/absolute_scaling.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/random_omit.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/data_statistics.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/make_param.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/fa_estimation.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/matthews.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/twmad_scale.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/tst_xtriage.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/tst_bayesian_estimator.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/absences.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/tst_massage_data.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/ta_alpha_beta_calc.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/outlier_plots.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/tst_mean_f_rms_f.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/outlier_rejection.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/mean_f_rms_f.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/tst_plan_sad_experiment.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/basic_analyses.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/tst_absences.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/arrays.py -> build/bdist.linux-x86_64/wheel/./mmtbx copying build/lib/mmtbx/process_predicted_model.py -> build/bdist.linux-x86_64/wheel/./mmtbx creating build/bdist.linux-x86_64/wheel/mmtbx/disorder copying build/lib/mmtbx/disorder/tst_analyze_model.py -> build/bdist.linux-x86_64/wheel/./mmtbx/disorder copying build/lib/mmtbx/disorder/tst_backbone.py -> build/bdist.linux-x86_64/wheel/./mmtbx/disorder copying build/lib/mmtbx/disorder/analyze_model.py -> build/bdist.linux-x86_64/wheel/./mmtbx/disorder copying build/lib/mmtbx/disorder/backbone.py -> build/bdist.linux-x86_64/wheel/./mmtbx/disorder copying build/lib/mmtbx/disorder/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/disorder copying build/lib/mmtbx/disorder/tst.py -> build/bdist.linux-x86_64/wheel/./mmtbx/disorder creating build/bdist.linux-x86_64/wheel/mmtbx/wwpdb copying build/lib/mmtbx/wwpdb/tst_rcsb_entry_request.py -> build/bdist.linux-x86_64/wheel/./mmtbx/wwpdb copying build/lib/mmtbx/wwpdb/rcsb_entry_request.py -> build/bdist.linux-x86_64/wheel/./mmtbx/wwpdb copying build/lib/mmtbx/wwpdb/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/wwpdb copying build/lib/mmtbx/wwpdb/rcsb_web_services.py -> build/bdist.linux-x86_64/wheel/./mmtbx/wwpdb copying build/lib/mmtbx/wwpdb/tst_rcsb_web_services.py -> build/bdist.linux-x86_64/wheel/./mmtbx/wwpdb copying build/lib/mmtbx/clashes.py -> build/bdist.linux-x86_64/wheel/./mmtbx creating build/bdist.linux-x86_64/wheel/mmtbx/pair_interaction copying build/lib/mmtbx/pair_interaction/pair_interaction.py -> build/bdist.linux-x86_64/wheel/./mmtbx/pair_interaction copying build/lib/mmtbx/pair_interaction/tst_04.py -> build/bdist.linux-x86_64/wheel/./mmtbx/pair_interaction copying build/lib/mmtbx/pair_interaction/tst_00.py -> build/bdist.linux-x86_64/wheel/./mmtbx/pair_interaction copying build/lib/mmtbx/pair_interaction/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/pair_interaction copying build/lib/mmtbx/pair_interaction/tst_01.py -> build/bdist.linux-x86_64/wheel/./mmtbx/pair_interaction copying build/lib/mmtbx/pair_interaction/tst_02.py -> build/bdist.linux-x86_64/wheel/./mmtbx/pair_interaction copying build/lib/mmtbx/pair_interaction/tst_05.py -> build/bdist.linux-x86_64/wheel/./mmtbx/pair_interaction copying build/lib/mmtbx/pair_interaction/tst_03.py -> build/bdist.linux-x86_64/wheel/./mmtbx/pair_interaction creating build/bdist.linux-x86_64/wheel/mmtbx/refinement copying build/lib/mmtbx/refinement/rigid_body.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/refinement/flip_peptide_side_chain.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/refinement/tst_real_space_simple.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/refinement/minimization_ncs_constraints.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/refinement/weights_params.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/refinement/group.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/refinement/energy_monitor.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/refinement/weights.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/refinement/tst_refinement_flags.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/refinement/wx_tardy_pdb.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement creating build/bdist.linux-x86_64/wheel/mmtbx/refinement/ensemble_refinement copying build/lib/mmtbx/refinement/ensemble_refinement/ensemble_utils.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/ensemble_refinement copying build/lib/mmtbx/refinement/ensemble_refinement/ensemble_probability.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/ensemble_refinement copying build/lib/mmtbx/refinement/ensemble_refinement/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/ensemble_refinement copying build/lib/mmtbx/refinement/tst_select_best_starting_model.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/refinement/select_best_starting_model.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/refinement/tst_rigid_body.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/refinement/minimization_monitor.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/refinement/adp_refinement.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/refinement/minimization.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/refinement/tst_occupancy_selections.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/refinement/geometry_minimization.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/refinement/tst_rigid_body_groups_from_pdb_chains.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/refinement/tst_misc.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/refinement/tst_anomalous_scatterer_groups.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/refinement/anomalous_scatterer_groups.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/refinement/tst_fit_rotamers.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/refinement/wrappers.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/refinement/tst_group_2.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/refinement/print_statistics.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/refinement/occupancies.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/refinement/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/refinement/orca.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/refinement/inspect_tardy_trajectory.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement creating build/bdist.linux-x86_64/wheel/mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/tst_fit_residues_1.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/rigid_body.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/tst_aa_residue_axes_and_clusters.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/tst_fit_water.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/occupancy.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/explode_and_refine.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/individual_sites.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/tst_fit_residues_6.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/fit_small_molecule.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/tst_individual_sites_1.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/tst_rigid_body.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/tst_weight.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/tst_fit_residues_selection.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/tst_fit_residues_1H.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/tst_fit_residue_2.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/tst_fit_residues_4.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/tst_fit_residue_1.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/adp.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/tst_fit_residue_0H.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/fit_his.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/tst_individual_sites_3.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/fit_residues.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/tst_fit_residue_0.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/tst_fit_residue_3.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/tst_fit_residues_5.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/tst_fit_residue_5.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/tst_fit_residues_3.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/tst_fit_residue_7.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/tst_fit_residue_4.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/tst_individual_sites_2.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/fit_water.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/tst_fit_residue_1H.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/tst_fit_residue_6.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/tst_monitor.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/weight.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/fit_residue.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/tst_fit_residues_2.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/utils.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/tst_fit_residue_full_sampling.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/tardy.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/refinement/tst_group.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/refinement/data.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/refinement/targets.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/refinement/utils.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/refinement/restraints.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/refinement/calculators.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/refinement/refinement_flags.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/grow_density.py -> build/bdist.linux-x86_64/wheel/./mmtbx creating build/bdist.linux-x86_64/wheel/mmtbx/nci copying build/lib/mmtbx/nci/hbond.py -> build/bdist.linux-x86_64/wheel/./mmtbx/nci copying build/lib/mmtbx/nci/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/nci copying build/lib/mmtbx/nci/data_filtering.py -> build/bdist.linux-x86_64/wheel/./mmtbx/nci copying build/lib/mmtbx/nci/skew_kurt_plot.py -> build/bdist.linux-x86_64/wheel/./mmtbx/nci copying build/lib/mmtbx/nci/tst_hbond.py -> build/bdist.linux-x86_64/wheel/./mmtbx/nci creating build/bdist.linux-x86_64/wheel/mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/tst_paral_geo.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/tst_tyr_from_gly_and_bnz.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/tst_pdb_interpretation_5.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/tst_motif.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/tst_glyco_hand.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/server.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/tst_user_supplied_library.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/tst_glyco_coordination.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/conformation_dependent_restraints.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/linking_mixins.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/linking_utils.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/geostd_utils.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/mmtbx_utils.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/tst_pdb_interpretation.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/tst_correct_hydrogens.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/tst_pdb_interpretation_ncs_processing.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/rotamer_utils.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/tst_linking.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/linking_setup.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/tst_selection.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/cif_types.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/conv_v2_v3.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/tst_neutron_distance.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/tst_pdb_interpretation_3.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/hydrogen_restrictions.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/idealized_aa.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/tst_superpose_ideal.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/tst_cif_triage.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/tst_rna_sugar_pucker_analysis.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/tst_metal_coordination.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/pdb_interpretation.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/glyco_utils.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/tst_pdb_interpretation_4.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/bondlength_defaults.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/correct_hydrogen_geometries.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/tst_cif_types.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/rna_sugar_pucker_analysis.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/tst_all_cif_files.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/tst_rotamer_utils.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/tst_chg.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/tst_iron_sulfur_clusters.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/tst_deuterium_terminii.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/tst_server.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/tst_protein_interpretation.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/populate_auto_linking_origin_ids.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/cif_triage.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/tst_pdb_interpretation_2.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/tst_geo_reduce_for_tardy.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/tst_rna_dna_interpretation.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/tst_idealized_aa.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/tst_carbo_linking.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/glyco_chiral_values.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/xmanip_tasks.py -> build/bdist.linux-x86_64/wheel/./mmtbx creating build/bdist.linux-x86_64/wheel/mmtbx/ligands copying build/lib/mmtbx/ligands/tst_xtal_screens.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ligands copying build/lib/mmtbx/ligands/hierarchy_utils.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ligands copying build/lib/mmtbx/ligands/tst_ready_set_utils.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ligands copying build/lib/mmtbx/ligands/ready_set_utils.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ligands copying build/lib/mmtbx/ligands/chemistry.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ligands copying build/lib/mmtbx/ligands/ready_set_basics.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ligands copying build/lib/mmtbx/ligands/elbow_utils.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ligands copying build/lib/mmtbx/ligands/electrons.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ligands copying build/lib/mmtbx/ligands/rdkit_utils.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ligands copying build/lib/mmtbx/ligands/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ligands copying build/lib/mmtbx/ligands/tst_electron_scripting.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ligands copying build/lib/mmtbx/ligands/xtal_screens.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ligands creating build/bdist.linux-x86_64/wheel/mmtbx/model copying build/lib/mmtbx/model/model.py -> build/bdist.linux-x86_64/wheel/./mmtbx/model copying build/lib/mmtbx/model/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/model copying build/lib/mmtbx/model/statistics.py -> build/bdist.linux-x86_64/wheel/./mmtbx/model copying build/lib/mmtbx/model/utils.py -> build/bdist.linux-x86_64/wheel/./mmtbx/model copying build/lib/mmtbx/model/restraints.py -> build/bdist.linux-x86_64/wheel/./mmtbx/model copying build/lib/mmtbx/find_peaks.py -> build/bdist.linux-x86_64/wheel/./mmtbx creating build/bdist.linux-x86_64/wheel/mmtbx/kinemage copying build/lib/mmtbx/kinemage/validation.py -> build/bdist.linux-x86_64/wheel/./mmtbx/kinemage copying build/lib/mmtbx/kinemage/ribbons.py -> build/bdist.linux-x86_64/wheel/./mmtbx/kinemage copying build/lib/mmtbx/kinemage/nrubs.py -> build/bdist.linux-x86_64/wheel/./mmtbx/kinemage copying build/lib/mmtbx/kinemage/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/kinemage copying build/lib/mmtbx/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx creating build/bdist.linux-x86_64/wheel/mmtbx/utils copying build/lib/mmtbx/utils/rotatable_bonds.py -> build/bdist.linux-x86_64/wheel/./mmtbx/utils copying build/lib/mmtbx/utils/ntc.py -> build/bdist.linux-x86_64/wheel/./mmtbx/utils copying build/lib/mmtbx/utils/fab_elbow_angle.py -> build/bdist.linux-x86_64/wheel/./mmtbx/utils copying build/lib/mmtbx/utils/grid2d.py -> build/bdist.linux-x86_64/wheel/./mmtbx/utils copying build/lib/mmtbx/utils/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/utils copying build/lib/mmtbx/utils/tst_switch_rotamers.py -> build/bdist.linux-x86_64/wheel/./mmtbx/utils creating build/bdist.linux-x86_64/wheel/mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/cdl_database.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/tst_multi_residue_rna.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/omega_database.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/cdl_svl_database.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/mcl.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/altloc_weighting.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/hpdl_database.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/testing_utils.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/multi_residue_class.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/cdl_utils.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/LinkedResidues.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/cdl_setup.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/tst_enol_peptide.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/multi_base_class.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/tst_rdl.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/tst_mutli_residue.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/tst_hpdl.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/tst_pH_mechanism.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/tst_mcl_02.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/bond_angle_registry.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/tst_mcl_03.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/rdl_database.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/multi_residue_cdl_class.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/tst_omega_cdl.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/metal_coordination_library.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/rotamers.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/tst_cdl_nucleotides.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/check_cdl_database.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/tst_cis_c_n_ca.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/nucleotides.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/pH_dependent_restraints.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/tst_mcl_01.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/mcl_sf4_coordination.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/omega.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/density_dependent_restraints.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/histidines.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/tst_poly_ca_multi_residue.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/sf4_restraints.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/enol_peptide_restraints.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/investigate_rotamer_space.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/hydrogen_bonding.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/tst_cdl_esd.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/tst_cdl.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/tst_rna_dna_fragments.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/utils.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library creating build/bdist.linux-x86_64/wheel/mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/tst_add_hydrogen_8.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/specialised_hydrogen_atoms.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/validate_H.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/riding.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/tst_parameterization_2.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/connectivity.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/build_hydrogens.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/tst_riding_fd_5.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/tst_riding_fd_2.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/tst_riding_fd_3.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/tst_add_hydrogen_time.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/tst_parameterization_7.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/tst_add_hydrogen_7.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/parameterization.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/tst_parameterization_6.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/tst_validate_H.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/tst_add_hydrogen_9.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/tst_parameterization_4.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/tst_parameterization_9.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/tst_riding_fd_4.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/tst_parameterization_8.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/tst_add_hydrogen_1.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/tst_add_hydrogen.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/tst_parameterization_3.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/tst_riding_manager.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/reduce_hydrogen.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/tst_add_hydrogen_6.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/tst_add_hydrogen_2.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/tst_riding_minimize.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/neutron_utils.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/tst_add_hydrogen_5.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/tst.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/find.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/tst_connectivity.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/tst_add_hydrogen_0.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/tst_parameterization_1.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/tst_parameterization_5.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/tst_riding_coefficients.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/tst_riding_fd_1.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/tst_add_hydrogen_3.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/tst_add_hydrogen_4.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/run_tests.py -> build/bdist.linux-x86_64/wheel/./mmtbx copying build/lib/mmtbx/real_space_correlation.py -> build/bdist.linux-x86_64/wheel/./mmtbx copying build/lib/mmtbx/superpose.py -> build/bdist.linux-x86_64/wheel/./mmtbx creating build/bdist.linux-x86_64/wheel/mmtbx/rsr copying build/lib/mmtbx/rsr/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/rsr copying build/lib/mmtbx/rsr/tst.py -> build/bdist.linux-x86_64/wheel/./mmtbx/rsr creating build/bdist.linux-x86_64/wheel/mmtbx/building copying build/lib/mmtbx/building/tst_extend_sidechains_2.py -> build/bdist.linux-x86_64/wheel/./mmtbx/building copying build/lib/mmtbx/building/extend_sidechains.py -> build/bdist.linux-x86_64/wheel/./mmtbx/building creating build/bdist.linux-x86_64/wheel/mmtbx/building/loop_closure copying build/lib/mmtbx/building/loop_closure/ccd.py -> build/bdist.linux-x86_64/wheel/./mmtbx/building/loop_closure copying build/lib/mmtbx/building/loop_closure/berkeley_ramalyze.py -> build/bdist.linux-x86_64/wheel/./mmtbx/building/loop_closure copying build/lib/mmtbx/building/loop_closure/starting_conformations.py -> build/bdist.linux-x86_64/wheel/./mmtbx/building/loop_closure copying build/lib/mmtbx/building/loop_closure/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/building/loop_closure copying build/lib/mmtbx/building/loop_closure/utils.py -> build/bdist.linux-x86_64/wheel/./mmtbx/building/loop_closure copying build/lib/mmtbx/building/tst_extend_sidechains.py -> build/bdist.linux-x86_64/wheel/./mmtbx/building copying build/lib/mmtbx/building/minimize_chain.py -> build/bdist.linux-x86_64/wheel/./mmtbx/building copying build/lib/mmtbx/building/loop_idealization.py -> build/bdist.linux-x86_64/wheel/./mmtbx/building creating build/bdist.linux-x86_64/wheel/mmtbx/building/ligands copying build/lib/mmtbx/building/ligands/tst_00.py -> build/bdist.linux-x86_64/wheel/./mmtbx/building/ligands copying build/lib/mmtbx/building/ligands/lifi.py -> build/bdist.linux-x86_64/wheel/./mmtbx/building/ligands copying build/lib/mmtbx/building/ligands/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/building/ligands copying build/lib/mmtbx/building/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/building copying build/lib/mmtbx/building/merge_models.py -> build/bdist.linux-x86_64/wheel/./mmtbx/building copying build/lib/mmtbx/building/cablam_idealization.py -> build/bdist.linux-x86_64/wheel/./mmtbx/building creating build/bdist.linux-x86_64/wheel/mmtbx/ringer copying build/lib/mmtbx/ringer/em_rscc.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ringer copying build/lib/mmtbx/ringer/tst_em_rscc.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ringer copying build/lib/mmtbx/ringer/em_rolling.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ringer copying build/lib/mmtbx/ringer/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ringer copying build/lib/mmtbx/ringer/em_scoring.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ringer copying build/lib/mmtbx/ringer/tst_emringer.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ringer copying build/lib/mmtbx/ringer/emringer.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ringer creating build/bdist.linux-x86_64/wheel/mmtbx/alignment copying build/lib/mmtbx/alignment/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/alignment creating build/bdist.linux-x86_64/wheel/mmtbx/dynamics copying build/lib/mmtbx/dynamics/ensemble_cd.py -> build/bdist.linux-x86_64/wheel/./mmtbx/dynamics copying build/lib/mmtbx/dynamics/tst_sa.py -> build/bdist.linux-x86_64/wheel/./mmtbx/dynamics copying build/lib/mmtbx/dynamics/simulated_annealing.py -> build/bdist.linux-x86_64/wheel/./mmtbx/dynamics copying build/lib/mmtbx/dynamics/cartesian_dynamics.py -> build/bdist.linux-x86_64/wheel/./mmtbx/dynamics copying build/lib/mmtbx/dynamics/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/dynamics copying build/lib/mmtbx/dynamics/constants.py -> build/bdist.linux-x86_64/wheel/./mmtbx/dynamics copying build/lib/mmtbx/dynamics/tst_cartesian_dynamics.py -> build/bdist.linux-x86_64/wheel/./mmtbx/dynamics creating build/bdist.linux-x86_64/wheel/mmtbx/ias copying build/lib/mmtbx/ias/tst_ias.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ias copying build/lib/mmtbx/ias/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ias creating build/bdist.linux-x86_64/wheel/mmtbx/bulk_solvent copying build/lib/mmtbx/bulk_solvent/kbu_refinery.py -> build/bdist.linux-x86_64/wheel/./mmtbx/bulk_solvent copying build/lib/mmtbx/bulk_solvent/tst_bulk_solvent_and_scaling.py -> build/bdist.linux-x86_64/wheel/./mmtbx/bulk_solvent copying build/lib/mmtbx/bulk_solvent/scaler.py -> build/bdist.linux-x86_64/wheel/./mmtbx/bulk_solvent copying build/lib/mmtbx/bulk_solvent/tst_kb_sol_u_star_fd.py -> build/bdist.linux-x86_64/wheel/./mmtbx/bulk_solvent copying build/lib/mmtbx/bulk_solvent/tst_mosaic.py -> build/bdist.linux-x86_64/wheel/./mmtbx/bulk_solvent copying build/lib/mmtbx/bulk_solvent/multi_mask_bulk_solvent.py -> build/bdist.linux-x86_64/wheel/./mmtbx/bulk_solvent copying build/lib/mmtbx/bulk_solvent/f_model_all_scales.py -> build/bdist.linux-x86_64/wheel/./mmtbx/bulk_solvent copying build/lib/mmtbx/bulk_solvent/example.py -> build/bdist.linux-x86_64/wheel/./mmtbx/bulk_solvent copying build/lib/mmtbx/bulk_solvent/tst_fit_kexpb_to_ktotal.py -> build/bdist.linux-x86_64/wheel/./mmtbx/bulk_solvent copying build/lib/mmtbx/bulk_solvent/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/bulk_solvent copying build/lib/mmtbx/bulk_solvent/tst_flat_nonuniform.py -> build/bdist.linux-x86_64/wheel/./mmtbx/bulk_solvent copying build/lib/mmtbx/bulk_solvent/example2.py -> build/bdist.linux-x86_64/wheel/./mmtbx/bulk_solvent copying build/lib/mmtbx/bulk_solvent/tst_scaler.py -> build/bdist.linux-x86_64/wheel/./mmtbx/bulk_solvent copying build/lib/mmtbx/bulk_solvent/tst_aniso_scaler.py -> build/bdist.linux-x86_64/wheel/./mmtbx/bulk_solvent copying build/lib/mmtbx/bulk_solvent/mosaic.py -> build/bdist.linux-x86_64/wheel/./mmtbx/bulk_solvent copying build/lib/mmtbx/bulk_solvent/bulk_solvent_and_scaling.py -> build/bdist.linux-x86_64/wheel/./mmtbx/bulk_solvent creating build/bdist.linux-x86_64/wheel/mmtbx/max_lik copying build/lib/mmtbx/max_lik/tst_max_lik.py -> build/bdist.linux-x86_64/wheel/./mmtbx/max_lik copying build/lib/mmtbx/max_lik/tst_maxlik.py -> build/bdist.linux-x86_64/wheel/./mmtbx/max_lik copying build/lib/mmtbx/max_lik/max_like_non_uniform.py -> build/bdist.linux-x86_64/wheel/./mmtbx/max_lik copying build/lib/mmtbx/max_lik/maxlik.py -> build/bdist.linux-x86_64/wheel/./mmtbx/max_lik copying build/lib/mmtbx/max_lik/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/max_lik copying build/lib/mmtbx/libtbx_refresh.py -> build/bdist.linux-x86_64/wheel/./mmtbx copying build/lib/mmtbx/f_model_info.py -> build/bdist.linux-x86_64/wheel/./mmtbx creating build/bdist.linux-x86_64/wheel/mmtbx/ncs copying build/lib/mmtbx/ncs/ligands.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ncs copying build/lib/mmtbx/ncs/cartesian_restraints.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ncs copying build/lib/mmtbx/ncs/tncs.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ncs copying build/lib/mmtbx/ncs/ncs_params.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ncs copying build/lib/mmtbx/ncs/ncs_search.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ncs copying build/lib/mmtbx/ncs/ncs.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ncs copying build/lib/mmtbx/ncs/ncs_utils.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ncs copying build/lib/mmtbx/ncs/ncs_restraints_group_list.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ncs copying build/lib/mmtbx/ncs/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ncs creating build/bdist.linux-x86_64/wheel/mmtbx/programs copying build/lib/mmtbx/programs/rna_validate_bonds.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/fmodel.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/rotalyze.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/pdbtools.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/barbed_wire_analysis.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/arginine_geometry.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/rama_z.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/suitename.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/polder.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/model_vs_sequence.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/reduce_cryoem_resolution.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/comparama.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/mask.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/pdb_as_cif.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/hbond.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/chiral_validation.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/cbetadev.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/xtrapol8.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/taam_minus_iam.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/cablam.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/undowser2.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/mp_validate_bonds.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/atom_valence_simple.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/ss_validation.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/ligand_restraints_validation.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/clashscore.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/suitename_old.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/ramalyze.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/water_b_factors.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/debug_riding.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/holton_geometry_validation.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/elbow_services.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/next_gen_atom_typing.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/ss_idealization.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/process_predicted_model.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/probe2.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/ribbons.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/atom_selection.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/reduce2.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/undowser.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/rna_validate_suites.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/hydrogenate.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/probescore_ligand.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/quantum_interface.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/matthews.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/real_space_correlation.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/cablam_idealization.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/rna_validate_puckers.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/clashscore2.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/validate_ligands.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/fetch.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/rna_validate.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/prepare_pdb_deposition.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/nonbonded_overlaps.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/emringer.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/omegalyze.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs creating build/bdist.linux-x86_64/wheel/mmtbx/real_space copying build/lib/mmtbx/real_space/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/real_space copying build/lib/mmtbx/real_space/tst.py -> build/bdist.linux-x86_64/wheel/./mmtbx/real_space creating build/bdist.linux-x86_64/wheel/mmtbx/suitename copying build/lib/mmtbx/suitename/suitealyze.py -> build/bdist.linux-x86_64/wheel/./mmtbx/suitename copying build/lib/mmtbx/suitename/suitename.py -> build/bdist.linux-x86_64/wheel/./mmtbx/suitename copying build/lib/mmtbx/suitename/suiteninput.py -> build/bdist.linux-x86_64/wheel/./mmtbx/suitename copying build/lib/mmtbx/suitename/diangle.py -> build/bdist.linux-x86_64/wheel/./mmtbx/suitename copying build/lib/mmtbx/suitename/suitenamedefs.py -> build/bdist.linux-x86_64/wheel/./mmtbx/suitename copying build/lib/mmtbx/suitename/dualparse.py -> build/bdist.linux-x86_64/wheel/./mmtbx/suitename copying build/lib/mmtbx/suitename/mainchain.py -> build/bdist.linux-x86_64/wheel/./mmtbx/suitename copying build/lib/mmtbx/suitename/transdent.py -> build/bdist.linux-x86_64/wheel/./mmtbx/suitename copying build/lib/mmtbx/suitename/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/suitename copying build/lib/mmtbx/suitename/suites.py -> build/bdist.linux-x86_64/wheel/./mmtbx/suitename copying build/lib/mmtbx/suitename/suitenout.py -> build/bdist.linux-x86_64/wheel/./mmtbx/suitename copying build/lib/mmtbx/suitename/suiteninit.py -> build/bdist.linux-x86_64/wheel/./mmtbx/suitename creating build/bdist.linux-x86_64/wheel/mmtbx/validation copying build/lib/mmtbx/validation/cbd_utils.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation copying build/lib/mmtbx/validation/ligands.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation copying build/lib/mmtbx/validation/rotalyze.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation copying build/lib/mmtbx/validation/barbed_wire_analysis.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation copying build/lib/mmtbx/validation/comprehensive_residue.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation copying build/lib/mmtbx/validation/rama_z.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation copying build/lib/mmtbx/validation/fav_lists.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation copying build/lib/mmtbx/validation/comparama.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation creating build/bdist.linux-x86_64/wheel/mmtbx/validation/ramachandran copying build/lib/mmtbx/validation/ramachandran/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/ramachandran copying build/lib/mmtbx/validation/ramachandran/convert_from_text.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/ramachandran copying build/lib/mmtbx/validation/cbetadev.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation copying build/lib/mmtbx/validation/mean_devs_PRO_phi_psi.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation copying build/lib/mmtbx/validation/cablam.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation copying build/lib/mmtbx/validation/undowser2.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation copying build/lib/mmtbx/validation/datasets.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation copying build/lib/mmtbx/validation/mp_validate_bonds.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation copying build/lib/mmtbx/validation/mean_devs_others_phi_psi.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation copying build/lib/mmtbx/validation/clashscore.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation copying build/lib/mmtbx/validation/ramalyze.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation copying build/lib/mmtbx/validation/mean_devs_VAL_THR_ILE_phi_psi.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation copying build/lib/mmtbx/validation/holton_geometry_validation.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation creating build/bdist.linux-x86_64/wheel/mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_hydrogen_addition_clashscore.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_ramalyze2.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_waters.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_molprobity_4.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_clashscore_2.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_rama_z_02.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_mp_validate_bonds.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_molprobity_2.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_rna_validate.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_cablam.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_ramalyze_rare.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_ramalyze.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_restraints.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_molprobity_5.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_experimental.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_do_flips_clashscore.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_molprobity_1.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_model_properties.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_find_region_max_value.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_mp_geo_endtoend.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_omegalyze.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_cablam_2.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_rotalyze.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_cbetadev_02.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_molprobity_arguments.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_suitename.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_mp_geo_chiral_volume_cases.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_symmetry_SS.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_mp_geo.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_undowser2.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_molprobity_3.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_clashscore.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_rama_z_01.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_undowser.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_keep_hydrogens.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_cbetadev.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/run_restraints.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_chiral_validation.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/sequence.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation copying build/lib/mmtbx/validation/analyze_peptides.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation copying build/lib/mmtbx/validation/undowser.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation copying build/lib/mmtbx/validation/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation copying build/lib/mmtbx/validation/experimental.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation copying build/lib/mmtbx/validation/waters.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation copying build/lib/mmtbx/validation/model_properties.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation copying build/lib/mmtbx/validation/ensembles.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation copying build/lib/mmtbx/validation/clashscore2.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation creating build/bdist.linux-x86_64/wheel/mmtbx/validation/molprobity copying build/lib/mmtbx/validation/molprobity/percentile_clashscore.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/molprobity copying build/lib/mmtbx/validation/molprobity/kinemage_templates.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/molprobity copying build/lib/mmtbx/validation/molprobity/probescore_ligand.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/molprobity copying build/lib/mmtbx/validation/molprobity/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/molprobity copying build/lib/mmtbx/validation/molprobity/percentile_mpscore.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/molprobity copying build/lib/mmtbx/validation/molprobity/mp_geo.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/molprobity copying build/lib/mmtbx/validation/molprobity/table_from_json.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/molprobity copying build/lib/mmtbx/validation/phi_psi_2_data.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation copying build/lib/mmtbx/validation/graphics.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation copying build/lib/mmtbx/validation/chain_comparison.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation copying build/lib/mmtbx/validation/validate_ligands.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation copying build/lib/mmtbx/validation/rna_validate.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation copying build/lib/mmtbx/validation/convert_lists.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation copying build/lib/mmtbx/validation/utils.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation copying build/lib/mmtbx/validation/restraints.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation copying build/lib/mmtbx/validation/omegalyze.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation copying build/lib/mmtbx/invariant_domain.py -> build/bdist.linux-x86_64/wheel/./mmtbx copying build/lib/mmtbx/restraints.py -> build/bdist.linux-x86_64/wheel/./mmtbx copying build/lib/mmtbx/domains_from_pae.py -> build/bdist.linux-x86_64/wheel/./mmtbx creating build/bdist.linux-x86_64/wheel/fable creating build/bdist.linux-x86_64/wheel/fable/command_line copying build/lib/fable/command_line/show_calls.py -> build/bdist.linux-x86_64/wheel/./fable/command_line copying build/lib/fable/command_line/split.py -> build/bdist.linux-x86_64/wheel/./fable/command_line copying build/lib/fable/command_line/cout.py -> build/bdist.linux-x86_64/wheel/./fable/command_line copying build/lib/fable/command_line/read.py -> build/bdist.linux-x86_64/wheel/./fable/command_line copying build/lib/fable/command_line/insert_write_at_start_of_each_procedure.py -> build/bdist.linux-x86_64/wheel/./fable/command_line copying build/lib/fable/command_line/fem_include_search_paths.py -> build/bdist.linux-x86_64/wheel/./fable/command_line copying build/lib/fable/command_line/__init__.py -> build/bdist.linux-x86_64/wheel/./fable/command_line copying build/lib/fable/simple_compilation.py -> build/bdist.linux-x86_64/wheel/./fable copying build/lib/fable/intrinsics.py -> build/bdist.linux-x86_64/wheel/./fable copying build/lib/fable/tst_cout_compile.py -> build/bdist.linux-x86_64/wheel/./fable copying build/lib/fable/cout.py -> build/bdist.linux-x86_64/wheel/./fable copying build/lib/fable/equivalence.py -> build/bdist.linux-x86_64/wheel/./fable copying build/lib/fable/read.py -> build/bdist.linux-x86_64/wheel/./fable copying build/lib/fable/__init__.py -> build/bdist.linux-x86_64/wheel/./fable copying build/lib/fable/run_tests.py -> build/bdist.linux-x86_64/wheel/./fable copying build/lib/fable/tokenization.py -> build/bdist.linux-x86_64/wheel/./fable copying build/lib/fable/tst_equivalence.py -> build/bdist.linux-x86_64/wheel/./fable copying build/lib/fable/tst_read.py -> build/bdist.linux-x86_64/wheel/./fable copying build/lib/fable/tst_ext.py -> build/bdist.linux-x86_64/wheel/./fable copying build/lib/fable/utils.py -> build/bdist.linux-x86_64/wheel/./fable copying build/lib/fable/tst_cout.py -> build/bdist.linux-x86_64/wheel/./fable creating build/bdist.linux-x86_64/wheel/rstbx creating build/bdist.linux-x86_64/wheel/rstbx/command_line copying build/lib/rstbx/command_line/simage.solver.py -> build/bdist.linux-x86_64/wheel/./rstbx/command_line copying build/lib/rstbx/command_line/simage.explore_completeness.py -> build/bdist.linux-x86_64/wheel/./rstbx/command_line copying build/lib/rstbx/command_line/viewer.py -> build/bdist.linux-x86_64/wheel/./rstbx/command_line copying build/lib/rstbx/command_line/slip_viewer.py -> build/bdist.linux-x86_64/wheel/./rstbx/command_line copying build/lib/rstbx/command_line/simage.create.py -> build/bdist.linux-x86_64/wheel/./rstbx/command_line copying build/lib/rstbx/command_line/simage.wx_display.py -> build/bdist.linux-x86_64/wheel/./rstbx/command_line copying build/lib/rstbx/command_line/__init__.py -> build/bdist.linux-x86_64/wheel/./rstbx/command_line copying build/lib/rstbx/command_line/index.py -> build/bdist.linux-x86_64/wheel/./rstbx/command_line copying build/lib/rstbx/command_line/example_viewer.py -> build/bdist.linux-x86_64/wheel/./rstbx/command_line creating build/bdist.linux-x86_64/wheel/rstbx/symmetry copying build/lib/rstbx/symmetry/subgroup.py -> build/bdist.linux-x86_64/wheel/./rstbx/symmetry copying build/lib/rstbx/symmetry/__init__.py -> build/bdist.linux-x86_64/wheel/./rstbx/symmetry creating build/bdist.linux-x86_64/wheel/rstbx/symmetry/constraints copying build/lib/rstbx/symmetry/constraints/g_gradients.py -> build/bdist.linux-x86_64/wheel/./rstbx/symmetry/constraints copying build/lib/rstbx/symmetry/constraints/__init__.py -> build/bdist.linux-x86_64/wheel/./rstbx/symmetry/constraints copying build/lib/rstbx/symmetry/constraints/parameter_reduction.py -> build/bdist.linux-x86_64/wheel/./rstbx/symmetry/constraints copying build/lib/rstbx/symmetry/sgtbx_adaptor.py -> build/bdist.linux-x86_64/wheel/./rstbx/symmetry creating build/bdist.linux-x86_64/wheel/rstbx/dps_core copying build/lib/rstbx/dps_core/tst_iotbx_converter.py -> build/bdist.linux-x86_64/wheel/./rstbx/dps_core copying build/lib/rstbx/dps_core/cell_assessment.py -> build/bdist.linux-x86_64/wheel/./rstbx/dps_core copying build/lib/rstbx/dps_core/constrainment.py -> build/bdist.linux-x86_64/wheel/./rstbx/dps_core copying build/lib/rstbx/dps_core/basis_choice.py -> build/bdist.linux-x86_64/wheel/./rstbx/dps_core copying build/lib/rstbx/dps_core/lepage.py -> build/bdist.linux-x86_64/wheel/./rstbx/dps_core copying build/lib/rstbx/dps_core/__init__.py -> build/bdist.linux-x86_64/wheel/./rstbx/dps_core copying build/lib/rstbx/dps_core/sampling.py -> build/bdist.linux-x86_64/wheel/./rstbx/dps_core copying build/lib/rstbx/dps_core/zuoreduction.py -> build/bdist.linux-x86_64/wheel/./rstbx/dps_core creating build/bdist.linux-x86_64/wheel/rstbx/bandpass copying build/lib/rstbx/bandpass/simulated_annealing.py -> build/bdist.linux-x86_64/wheel/./rstbx/bandpass copying build/lib/rstbx/bandpass/__init__.py -> build/bdist.linux-x86_64/wheel/./rstbx/bandpass creating build/bdist.linux-x86_64/wheel/rstbx/bpcx copying build/lib/rstbx/bpcx/uc1_2.py -> build/bdist.linux-x86_64/wheel/./rstbx/bpcx copying build/lib/rstbx/bpcx/uc1_2a.py -> build/bdist.linux-x86_64/wheel/./rstbx/bpcx copying build/lib/rstbx/bpcx/uc1_2_positions.py -> build/bdist.linux-x86_64/wheel/./rstbx/bpcx copying build/lib/rstbx/bpcx/ersatz_misset.py -> build/bdist.linux-x86_64/wheel/./rstbx/bpcx copying build/lib/rstbx/bpcx/uc1_2_positions_idx.py -> build/bdist.linux-x86_64/wheel/./rstbx/bpcx creating build/bdist.linux-x86_64/wheel/rstbx/bpcx/detector_model copying build/lib/rstbx/bpcx/detector_model/instrument_specifics.py -> build/bdist.linux-x86_64/wheel/./rstbx/bpcx/detector_model copying build/lib/rstbx/bpcx/detector_model/tst_detector_model.py -> build/bdist.linux-x86_64/wheel/./rstbx/bpcx/detector_model copying build/lib/rstbx/bpcx/detector_model/__init__.py -> build/bdist.linux-x86_64/wheel/./rstbx/bpcx/detector_model copying build/lib/rstbx/bpcx/detector_model/detector.py -> build/bdist.linux-x86_64/wheel/./rstbx/bpcx/detector_model copying build/lib/rstbx/bpcx/compare_mosflm_xds.py -> build/bdist.linux-x86_64/wheel/./rstbx/bpcx copying build/lib/rstbx/bpcx/uc1_2_validate.py -> build/bdist.linux-x86_64/wheel/./rstbx/bpcx copying build/lib/rstbx/bpcx/__init__.py -> build/bdist.linux-x86_64/wheel/./rstbx/bpcx creating build/bdist.linux-x86_64/wheel/rstbx/outlier_spots copying build/lib/rstbx/outlier_spots/fit_distribution.py -> build/bdist.linux-x86_64/wheel/./rstbx/outlier_spots copying build/lib/rstbx/outlier_spots/__init__.py -> build/bdist.linux-x86_64/wheel/./rstbx/outlier_spots creating build/bdist.linux-x86_64/wheel/rstbx/new_horizons copying build/lib/rstbx/new_horizons/spot_shape.py -> build/bdist.linux-x86_64/wheel/./rstbx/new_horizons copying build/lib/rstbx/new_horizons/speckfinder.py -> build/bdist.linux-x86_64/wheel/./rstbx/new_horizons copying build/lib/rstbx/new_horizons/pixel_spread.py -> build/bdist.linux-x86_64/wheel/./rstbx/new_horizons copying build/lib/rstbx/new_horizons/stats_index.py -> build/bdist.linux-x86_64/wheel/./rstbx/new_horizons copying build/lib/rstbx/new_horizons/__init__.py -> build/bdist.linux-x86_64/wheel/./rstbx/new_horizons copying build/lib/rstbx/new_horizons/oscillation_shots.py -> build/bdist.linux-x86_64/wheel/./rstbx/new_horizons copying build/lib/rstbx/new_horizons/index.py -> build/bdist.linux-x86_64/wheel/./rstbx/new_horizons creating build/bdist.linux-x86_64/wheel/rstbx/simulation copying build/lib/rstbx/simulation/sim_utils.py -> build/bdist.linux-x86_64/wheel/./rstbx/simulation copying build/lib/rstbx/simulation/tst_xfel1_simple.py -> build/bdist.linux-x86_64/wheel/./rstbx/simulation copying build/lib/rstbx/simulation/sim_pdf.py -> build/bdist.linux-x86_64/wheel/./rstbx/simulation copying build/lib/rstbx/simulation/__init__.py -> build/bdist.linux-x86_64/wheel/./rstbx/simulation copying build/lib/rstbx/simulation/constants.py -> build/bdist.linux-x86_64/wheel/./rstbx/simulation creating build/bdist.linux-x86_64/wheel/rstbx/diffraction copying build/lib/rstbx/diffraction/tst_predict.py -> build/bdist.linux-x86_64/wheel/./rstbx/diffraction copying build/lib/rstbx/diffraction/tst_partial_derivatives.py -> build/bdist.linux-x86_64/wheel/./rstbx/diffraction copying build/lib/rstbx/diffraction/tst_ewald_sphere.py -> build/bdist.linux-x86_64/wheel/./rstbx/diffraction copying build/lib/rstbx/diffraction/__init__.py -> build/bdist.linux-x86_64/wheel/./rstbx/diffraction creating build/bdist.linux-x86_64/wheel/rstbx/diffraction/fastbragg copying build/lib/rstbx/diffraction/fastbragg/tst_utils_clustering.py -> build/bdist.linux-x86_64/wheel/./rstbx/diffraction/fastbragg copying build/lib/rstbx/diffraction/fastbragg/__init__.py -> build/bdist.linux-x86_64/wheel/./rstbx/diffraction/fastbragg copying build/lib/rstbx/diffraction/fastbragg/tst_bragg_minimal.py -> build/bdist.linux-x86_64/wheel/./rstbx/diffraction/fastbragg creating build/bdist.linux-x86_64/wheel/rstbx/dials_core copying build/lib/rstbx/dials_core/integration_core.py -> build/bdist.linux-x86_64/wheel/./rstbx/dials_core copying build/lib/rstbx/dials_core/__init__.py -> build/bdist.linux-x86_64/wheel/./rstbx/dials_core creating build/bdist.linux-x86_64/wheel/rstbx/array_family copying build/lib/rstbx/array_family/flex.py -> build/bdist.linux-x86_64/wheel/./rstbx/array_family copying build/lib/rstbx/array_family/__init__.py -> build/bdist.linux-x86_64/wheel/./rstbx/array_family creating build/bdist.linux-x86_64/wheel/rstbx/phil copying build/lib/rstbx/phil/scope.py -> build/bdist.linux-x86_64/wheel/./rstbx/phil copying build/lib/rstbx/phil/__init__.py -> build/bdist.linux-x86_64/wheel/./rstbx/phil copying build/lib/rstbx/phil/preferences.py -> build/bdist.linux-x86_64/wheel/./rstbx/phil copying build/lib/rstbx/phil/phil_preferences.py -> build/bdist.linux-x86_64/wheel/./rstbx/phil creating build/bdist.linux-x86_64/wheel/rstbx/apps copying build/lib/rstbx/apps/spot_markup.py -> build/bdist.linux-x86_64/wheel/./rstbx/apps copying build/lib/rstbx/apps/dual_resolution_helpers.py -> build/bdist.linux-x86_64/wheel/./rstbx/apps copying build/lib/rstbx/apps/slip_helpers.py -> build/bdist.linux-x86_64/wheel/./rstbx/apps creating build/bdist.linux-x86_64/wheel/rstbx/apps/stills copying build/lib/rstbx/apps/stills/stills_integration.py -> build/bdist.linux-x86_64/wheel/./rstbx/apps/stills copying build/lib/rstbx/apps/stills/dials_refinement_preceding_integration.py -> build/bdist.linux-x86_64/wheel/./rstbx/apps/stills copying build/lib/rstbx/apps/stills/simple_integration.py -> build/bdist.linux-x86_64/wheel/./rstbx/apps/stills copying build/lib/rstbx/apps/stills/util.py -> build/bdist.linux-x86_64/wheel/./rstbx/apps/stills copying build/lib/rstbx/apps/stills/__init__.py -> build/bdist.linux-x86_64/wheel/./rstbx/apps/stills copying build/lib/rstbx/apps/stills/deltapsi_refinement_preceding_integration.py -> build/bdist.linux-x86_64/wheel/./rstbx/apps/stills copying build/lib/rstbx/apps/__init__.py -> build/bdist.linux-x86_64/wheel/./rstbx/apps creating build/bdist.linux-x86_64/wheel/rstbx/cftbx copying build/lib/rstbx/cftbx/tst_coordinate_frame_converter.py -> build/bdist.linux-x86_64/wheel/./rstbx/cftbx copying build/lib/rstbx/cftbx/coordinate_frame_converter.py -> build/bdist.linux-x86_64/wheel/./rstbx/cftbx copying build/lib/rstbx/cftbx/coordinate_frame_helpers.py -> build/bdist.linux-x86_64/wheel/./rstbx/cftbx copying build/lib/rstbx/cftbx/__init__.py -> build/bdist.linux-x86_64/wheel/./rstbx/cftbx creating build/bdist.linux-x86_64/wheel/rstbx/simage copying build/lib/rstbx/simage/run_labelit_index.py -> build/bdist.linux-x86_64/wheel/./rstbx/simage copying build/lib/rstbx/simage/refine_uc_cr.py -> build/bdist.linux-x86_64/wheel/./rstbx/simage copying build/lib/rstbx/simage/explore_completeness.py -> build/bdist.linux-x86_64/wheel/./rstbx/simage copying build/lib/rstbx/simage/run_spotfinder.py -> build/bdist.linux-x86_64/wheel/./rstbx/simage copying build/lib/rstbx/simage/integrate_crude.py -> build/bdist.linux-x86_64/wheel/./rstbx/simage copying build/lib/rstbx/simage/create.py -> build/bdist.linux-x86_64/wheel/./rstbx/simage copying build/lib/rstbx/simage/__init__.py -> build/bdist.linux-x86_64/wheel/./rstbx/simage copying build/lib/rstbx/simage/solver.py -> build/bdist.linux-x86_64/wheel/./rstbx/simage copying build/lib/rstbx/simage/tst.py -> build/bdist.linux-x86_64/wheel/./rstbx/simage copying build/lib/rstbx/simage/wx_display.py -> build/bdist.linux-x86_64/wheel/./rstbx/simage creating build/bdist.linux-x86_64/wheel/rstbx/viewer copying build/lib/rstbx/viewer/pixels3d.py -> build/bdist.linux-x86_64/wheel/./rstbx/viewer copying build/lib/rstbx/viewer/integration.py -> build/bdist.linux-x86_64/wheel/./rstbx/viewer copying build/lib/rstbx/viewer/controls.py -> build/bdist.linux-x86_64/wheel/./rstbx/viewer copying build/lib/rstbx/viewer/spotfinder_wrap.py -> build/bdist.linux-x86_64/wheel/./rstbx/viewer copying build/lib/rstbx/viewer/calibration_frame.py -> build/bdist.linux-x86_64/wheel/./rstbx/viewer copying build/lib/rstbx/viewer/calibration.py -> build/bdist.linux-x86_64/wheel/./rstbx/viewer copying build/lib/rstbx/viewer/processing.py -> build/bdist.linux-x86_64/wheel/./rstbx/viewer copying build/lib/rstbx/viewer/display.py -> build/bdist.linux-x86_64/wheel/./rstbx/viewer copying build/lib/rstbx/viewer/results_base.py -> build/bdist.linux-x86_64/wheel/./rstbx/viewer copying build/lib/rstbx/viewer/indexing.py -> build/bdist.linux-x86_64/wheel/./rstbx/viewer copying build/lib/rstbx/viewer/__init__.py -> build/bdist.linux-x86_64/wheel/./rstbx/viewer copying build/lib/rstbx/viewer/drivers.py -> build/bdist.linux-x86_64/wheel/./rstbx/viewer copying build/lib/rstbx/viewer/tst.py -> build/bdist.linux-x86_64/wheel/./rstbx/viewer copying build/lib/rstbx/viewer/dataset.py -> build/bdist.linux-x86_64/wheel/./rstbx/viewer copying build/lib/rstbx/viewer/frame.py -> build/bdist.linux-x86_64/wheel/./rstbx/viewer copying build/lib/rstbx/viewer/spotfinder_frame.py -> build/bdist.linux-x86_64/wheel/./rstbx/viewer creating build/bdist.linux-x86_64/wheel/rstbx/detectors copying build/lib/rstbx/detectors/silicon.py -> build/bdist.linux-x86_64/wheel/./rstbx/detectors copying build/lib/rstbx/detectors/__init__.py -> build/bdist.linux-x86_64/wheel/./rstbx/detectors copying build/lib/rstbx/__init__.py -> build/bdist.linux-x86_64/wheel/./rstbx copying build/lib/rstbx/run_tests.py -> build/bdist.linux-x86_64/wheel/./rstbx creating build/bdist.linux-x86_64/wheel/rstbx/sublattice_support copying build/lib/rstbx/sublattice_support/tst_sublattice.py -> build/bdist.linux-x86_64/wheel/./rstbx/sublattice_support copying build/lib/rstbx/sublattice_support/__init__.py -> build/bdist.linux-x86_64/wheel/./rstbx/sublattice_support copying build/lib/rstbx/sublattice_support/change_basis.py -> build/bdist.linux-x86_64/wheel/./rstbx/sublattice_support creating build/bdist.linux-x86_64/wheel/rstbx/slip_viewer copying build/lib/rstbx/slip_viewer/ring_frame.py -> build/bdist.linux-x86_64/wheel/./rstbx/slip_viewer copying build/lib/rstbx/slip_viewer/tile_generation.py -> build/bdist.linux-x86_64/wheel/./rstbx/slip_viewer copying build/lib/rstbx/slip_viewer/uc_frame.py -> build/bdist.linux-x86_64/wheel/./rstbx/slip_viewer copying build/lib/rstbx/slip_viewer/slip_display.py -> build/bdist.linux-x86_64/wheel/./rstbx/slip_viewer copying build/lib/rstbx/slip_viewer/slip_viewer_image_factory.py -> build/bdist.linux-x86_64/wheel/./rstbx/slip_viewer copying build/lib/rstbx/slip_viewer/pyslip.py -> build/bdist.linux-x86_64/wheel/./rstbx/slip_viewer copying build/lib/rstbx/slip_viewer/calibration_frame.py -> build/bdist.linux-x86_64/wheel/./rstbx/slip_viewer copying build/lib/rstbx/slip_viewer/__init__.py -> build/bdist.linux-x86_64/wheel/./rstbx/slip_viewer copying build/lib/rstbx/slip_viewer/score_frame.py -> build/bdist.linux-x86_64/wheel/./rstbx/slip_viewer copying build/lib/rstbx/slip_viewer/example_frame_plugin_hidden.py -> build/bdist.linux-x86_64/wheel/./rstbx/slip_viewer copying build/lib/rstbx/slip_viewer/frame.py -> build/bdist.linux-x86_64/wheel/./rstbx/slip_viewer creating build/bdist.linux-x86_64/wheel/rstbx/indexing copying build/lib/rstbx/indexing/do_index.py -> build/bdist.linux-x86_64/wheel/./rstbx/indexing copying build/lib/rstbx/indexing/__init__.py -> build/bdist.linux-x86_64/wheel/./rstbx/indexing copying build/lib/rstbx/indexing/tst_auto_monoscan.py -> build/bdist.linux-x86_64/wheel/./rstbx/indexing copying build/lib/rstbx/indexing/tst_dataset1.py -> build/bdist.linux-x86_64/wheel/./rstbx/indexing creating build/bdist.linux-x86_64/wheel/rstbx/indexing_api copying build/lib/rstbx/indexing_api/test_dps.py -> build/bdist.linux-x86_64/wheel/./rstbx/indexing_api copying build/lib/rstbx/indexing_api/lattice.py -> build/bdist.linux-x86_64/wheel/./rstbx/indexing_api copying build/lib/rstbx/indexing_api/tools.py -> build/bdist.linux-x86_64/wheel/./rstbx/indexing_api copying build/lib/rstbx/indexing_api/force_cell.py -> build/bdist.linux-x86_64/wheel/./rstbx/indexing_api copying build/lib/rstbx/indexing_api/basis_choice.py -> build/bdist.linux-x86_64/wheel/./rstbx/indexing_api copying build/lib/rstbx/indexing_api/nearest_neighbor.py -> build/bdist.linux-x86_64/wheel/./rstbx/indexing_api copying build/lib/rstbx/indexing_api/__init__.py -> build/bdist.linux-x86_64/wheel/./rstbx/indexing_api copying build/lib/rstbx/indexing_api/sampling.py -> build/bdist.linux-x86_64/wheel/./rstbx/indexing_api copying build/lib/rstbx/indexing_api/outlier_procedure.py -> build/bdist.linux-x86_64/wheel/./rstbx/indexing_api copying build/lib/rstbx/indexing_api/outlier_detection.py -> build/bdist.linux-x86_64/wheel/./rstbx/indexing_api copying build/lib/rstbx/utils.py -> build/bdist.linux-x86_64/wheel/./rstbx creating build/bdist.linux-x86_64/wheel/boost copying build/lib/boost/tuple.py -> build/bdist.linux-x86_64/wheel/./boost copying build/lib/boost/optional.py -> build/bdist.linux-x86_64/wheel/./boost copying build/lib/boost/std_pair.py -> build/bdist.linux-x86_64/wheel/./boost copying build/lib/boost/python.py -> build/bdist.linux-x86_64/wheel/./boost copying build/lib/boost/__init__.py -> build/bdist.linux-x86_64/wheel/./boost copying build/lib/boost/rational.py -> build/bdist.linux-x86_64/wheel/./boost creating build/bdist.linux-x86_64/wheel/spotfinder creating build/bdist.linux-x86_64/wheel/spotfinder/command_line copying build/lib/spotfinder/command_line/image_viewer.py -> build/bdist.linux-x86_64/wheel/./spotfinder/command_line copying build/lib/spotfinder/command_line/thin_client.py -> build/bdist.linux-x86_64/wheel/./spotfinder/command_line copying build/lib/spotfinder/command_line/signal_strength.py -> build/bdist.linux-x86_64/wheel/./spotfinder/command_line copying build/lib/spotfinder/command_line/sweep_strength.py -> build/bdist.linux-x86_64/wheel/./spotfinder/command_line copying build/lib/spotfinder/command_line/__init__.py -> build/bdist.linux-x86_64/wheel/./spotfinder/command_line copying build/lib/spotfinder/command_line/find_active_area.py -> build/bdist.linux-x86_64/wheel/./spotfinder/command_line copying build/lib/spotfinder/command_line/mp_spotfinder_server_read_file.py -> build/bdist.linux-x86_64/wheel/./spotfinder/command_line creating build/bdist.linux-x86_64/wheel/spotfinder/math_support copying build/lib/spotfinder/math_support/sphere_formulae.py -> build/bdist.linux-x86_64/wheel/./spotfinder/math_support copying build/lib/spotfinder/math_support/__init__.py -> build/bdist.linux-x86_64/wheel/./spotfinder/math_support creating build/bdist.linux-x86_64/wheel/spotfinder/core_toolbox copying build/lib/spotfinder/core_toolbox/close_spots_detail.py -> build/bdist.linux-x86_64/wheel/./spotfinder/core_toolbox copying build/lib/spotfinder/core_toolbox/__init__.py -> build/bdist.linux-x86_64/wheel/./spotfinder/core_toolbox creating build/bdist.linux-x86_64/wheel/spotfinder/diffraction copying build/lib/spotfinder/diffraction/imagefiles.py -> build/bdist.linux-x86_64/wheel/./spotfinder/diffraction copying build/lib/spotfinder/diffraction/__init__.py -> build/bdist.linux-x86_64/wheel/./spotfinder/diffraction copying build/lib/spotfinder/diffraction/geometry.py -> build/bdist.linux-x86_64/wheel/./spotfinder/diffraction creating build/bdist.linux-x86_64/wheel/spotfinder/applications copying build/lib/spotfinder/applications/image_viewer.py -> build/bdist.linux-x86_64/wheel/./spotfinder/applications copying build/lib/spotfinder/applications/signal_strength.py -> build/bdist.linux-x86_64/wheel/./spotfinder/applications creating build/bdist.linux-x86_64/wheel/spotfinder/applications/xfel copying build/lib/spotfinder/applications/xfel/correction_vector_plot.py -> build/bdist.linux-x86_64/wheel/./spotfinder/applications/xfel copying build/lib/spotfinder/applications/xfel/cxi_phil.py -> build/bdist.linux-x86_64/wheel/./spotfinder/applications/xfel copying build/lib/spotfinder/applications/xfel/__init__.py -> build/bdist.linux-x86_64/wheel/./spotfinder/applications/xfel copying build/lib/spotfinder/applications/xfel/cxi_run3.py -> build/bdist.linux-x86_64/wheel/./spotfinder/applications/xfel creating build/bdist.linux-x86_64/wheel/spotfinder/applications/heuristic_tbx copying build/lib/spotfinder/applications/heuristic_tbx/__init__.py -> build/bdist.linux-x86_64/wheel/./spotfinder/applications/heuristic_tbx copying build/lib/spotfinder/applications/heuristic_tbx/ice_nztt.py -> build/bdist.linux-x86_64/wheel/./spotfinder/applications/heuristic_tbx copying build/lib/spotfinder/applications/heuristic_tbx/spotreporter.py -> build/bdist.linux-x86_64/wheel/./spotfinder/applications/heuristic_tbx copying build/lib/spotfinder/applications/heuristic_tbx/method2_resolution.py -> build/bdist.linux-x86_64/wheel/./spotfinder/applications/heuristic_tbx copying build/lib/spotfinder/applications/heuristic_tbx/ice2.py -> build/bdist.linux-x86_64/wheel/./spotfinder/applications/heuristic_tbx copying build/lib/spotfinder/applications/stats_distl.py -> build/bdist.linux-x86_64/wheel/./spotfinder/applications copying build/lib/spotfinder/applications/wrappers.py -> build/bdist.linux-x86_64/wheel/./spotfinder/applications copying build/lib/spotfinder/applications/practical_heuristics.py -> build/bdist.linux-x86_64/wheel/./spotfinder/applications copying build/lib/spotfinder/applications/__init__.py -> build/bdist.linux-x86_64/wheel/./spotfinder/applications creating build/bdist.linux-x86_64/wheel/spotfinder/array_family copying build/lib/spotfinder/array_family/flex.py -> build/bdist.linux-x86_64/wheel/./spotfinder/array_family copying build/lib/spotfinder/array_family/__init__.py -> build/bdist.linux-x86_64/wheel/./spotfinder/array_family creating build/bdist.linux-x86_64/wheel/spotfinder/dxtbx_toolbox copying build/lib/spotfinder/dxtbx_toolbox/practical_heuristics.py -> build/bdist.linux-x86_64/wheel/./spotfinder/dxtbx_toolbox copying build/lib/spotfinder/dxtbx_toolbox/__init__.py -> build/bdist.linux-x86_64/wheel/./spotfinder/dxtbx_toolbox copying build/lib/spotfinder/__init__.py -> build/bdist.linux-x86_64/wheel/./spotfinder copying build/lib/spotfinder/run_tests.py -> build/bdist.linux-x86_64/wheel/./spotfinder creating build/bdist.linux-x86_64/wheel/spotfinder/servers copying build/lib/spotfinder/servers/apache.py -> build/bdist.linux-x86_64/wheel/./spotfinder/servers copying build/lib/spotfinder/servers/apache_dials.py -> build/bdist.linux-x86_64/wheel/./spotfinder/servers copying build/lib/spotfinder/servers/apache_utils.py -> build/bdist.linux-x86_64/wheel/./spotfinder/servers copying build/lib/spotfinder/servers/apache_bcsb.py -> build/bdist.linux-x86_64/wheel/./spotfinder/servers copying build/lib/spotfinder/servers/thin_client.py -> build/bdist.linux-x86_64/wheel/./spotfinder/servers copying build/lib/spotfinder/servers/spotfinder_server_read_file.py -> build/bdist.linux-x86_64/wheel/./spotfinder/servers copying build/lib/spotfinder/servers/spotfinder_server_client_push.py -> build/bdist.linux-x86_64/wheel/./spotfinder/servers copying build/lib/spotfinder/servers/general_client_example.py -> build/bdist.linux-x86_64/wheel/./spotfinder/servers copying build/lib/spotfinder/servers/bcsb_client_example.py -> build/bdist.linux-x86_64/wheel/./spotfinder/servers copying build/lib/spotfinder/servers/specific_client_example.py -> build/bdist.linux-x86_64/wheel/./spotfinder/servers copying build/lib/spotfinder/servers/multipart_encoder.py -> build/bdist.linux-x86_64/wheel/./spotfinder/servers copying build/lib/spotfinder/servers/pilatus_client.py -> build/bdist.linux-x86_64/wheel/./spotfinder/servers copying build/lib/spotfinder/servers/adsc_client.py -> build/bdist.linux-x86_64/wheel/./spotfinder/servers copying build/lib/spotfinder/servers/__init__.py -> build/bdist.linux-x86_64/wheel/./spotfinder/servers copying build/lib/spotfinder/servers/mp_spotfinder_server_read_file.py -> build/bdist.linux-x86_64/wheel/./spotfinder/servers copying build/lib/spotfinder/servers/mp_spotfinder_server_is_alive.py -> build/bdist.linux-x86_64/wheel/./spotfinder/servers copying build/lib/spotfinder/exception.py -> build/bdist.linux-x86_64/wheel/./spotfinder creating build/bdist.linux-x86_64/wheel/iotbx creating build/bdist.linux-x86_64/wheel/iotbx/command_line copying build/lib/iotbx/command_line/shelx.as_xray_structure.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/cif.as_miller_arrays.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/pdb_remediator.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/simple_map_coefficients.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/split_data_cif.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/sort_atoms.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/french_wilson.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/build_phil_cache.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/phil.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/pdb_as_cif.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/show_distances.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/detector_image_as_png.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/explore_metric_symmetry.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/pdb.superpose_centers_of_mass.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/flip_symmetric_amino_acids.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/unique_with_biomt.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/r_free_flags_completion_simple.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/pdb_cif_conversion.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/pdb.link_as_geometry_restraints_edits.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/reflection_file_converter.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/blast_pdb.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/get_pubmed_citation.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/lattice_symmetry.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/cns.sdb_reader.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/cns.transfer_crystal_symmetry.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/reflection_statistics.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/pdb_labels_comparison.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/pdb_as_fasta.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/pdb_labels_diff.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/cif.as_xray_structure.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/reindex.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/patterson_map.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/cif_as_pdb.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/pdb_get_citation.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/r_free_flags_accumulation.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/reflection_file_reader.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/pdb.print_sequence.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/dano_as_amplitudes.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/poscar_as_xray_structure.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/cns_as_mtz.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/pdb_add_conformations.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/pdb.box_around_molecule.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/dtrek.to_cns.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/mtz_as_cif.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/pdb.join_fragment_files.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/show_systematic_absences.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/mtz.dump.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/pdb.superpose_atoms_by_name.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/r_free_flags_as_cns.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/__init__.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/mtrix_reconstruction.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/effective_resolution.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/reflection_file_editor.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/pdb.b_factor_stats.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/cif.validate.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/pdb.as_xray_structure.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/biomt_reconstruction.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/cns.reflection_reader.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/cbf_read.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/pdb.insert_scale_records.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/pdb_show_connectivity.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/shelx.dump_as_python.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/emma.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/pdb_split_models.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/file_reader.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/merging_statistics.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/export_scalepack_unmerged.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/csv_as_mtz.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/pdb.hierarchy.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/crystal_symmetry_from_any.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/xplor.map.show_summary.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/shelx.as_cif.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/distance_least_squares.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/symmetry_search.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line creating build/bdist.linux-x86_64/wheel/iotbx/examples copying build/lib/iotbx/examples/pdb_hierarchy.py -> build/bdist.linux-x86_64/wheel/./iotbx/examples copying build/lib/iotbx/examples/mtz_free_flipper.py -> build/bdist.linux-x86_64/wheel/./iotbx/examples copying build/lib/iotbx/examples/pdb_symmetry_copies.py -> build/bdist.linux-x86_64/wheel/./iotbx/examples copying build/lib/iotbx/examples/recalculate_phenix_refine_r_factors.py -> build/bdist.linux-x86_64/wheel/./iotbx/examples creating build/bdist.linux-x86_64/wheel/iotbx/examples/pdb_truncate_to_ala copying build/lib/iotbx/examples/pdb_truncate_to_ala/v0_getting_started.py -> build/bdist.linux-x86_64/wheel/./iotbx/examples/pdb_truncate_to_ala copying build/lib/iotbx/examples/pdb_truncate_to_ala/v3_better.py -> build/bdist.linux-x86_64/wheel/./iotbx/examples/pdb_truncate_to_ala copying build/lib/iotbx/examples/pdb_truncate_to_ala/v1_loop_over_atoms.py -> build/bdist.linux-x86_64/wheel/./iotbx/examples/pdb_truncate_to_ala copying build/lib/iotbx/examples/pdb_truncate_to_ala/v4_with_bells_and_whistles.py -> build/bdist.linux-x86_64/wheel/./iotbx/examples/pdb_truncate_to_ala copying build/lib/iotbx/examples/pdb_truncate_to_ala/v2_simple.py -> build/bdist.linux-x86_64/wheel/./iotbx/examples/pdb_truncate_to_ala copying build/lib/iotbx/examples/pdb_truncate_to_ala/__init__.py -> build/bdist.linux-x86_64/wheel/./iotbx/examples/pdb_truncate_to_ala copying build/lib/iotbx/examples/pdb_truncate_to_ala/tst.py -> build/bdist.linux-x86_64/wheel/./iotbx/examples/pdb_truncate_to_ala copying build/lib/iotbx/examples/shelx_latt_sym_to_space_group_symbol.py -> build/bdist.linux-x86_64/wheel/./iotbx/examples copying build/lib/iotbx/examples/tst_mtz_free_flipper.py -> build/bdist.linux-x86_64/wheel/./iotbx/examples copying build/lib/iotbx/examples/libtbx_phil_examples.py -> build/bdist.linux-x86_64/wheel/./iotbx/examples copying build/lib/iotbx/examples/direct_methods_light.py -> build/bdist.linux-x86_64/wheel/./iotbx/examples copying build/lib/iotbx/examples/pdb_tardy_conf_sampling_simple.py -> build/bdist.linux-x86_64/wheel/./iotbx/examples copying build/lib/iotbx/examples/pdb_to_map_simple.py -> build/bdist.linux-x86_64/wheel/./iotbx/examples copying build/lib/iotbx/examples/pdb_shake.py -> build/bdist.linux-x86_64/wheel/./iotbx/examples copying build/lib/iotbx/examples/pdbx_mmcif_tutorial.py -> build/bdist.linux-x86_64/wheel/./iotbx/examples copying build/lib/iotbx/examples/pdb_split_chains.py -> build/bdist.linux-x86_64/wheel/./iotbx/examples copying build/lib/iotbx/examples/__init__.py -> build/bdist.linux-x86_64/wheel/./iotbx/examples copying build/lib/iotbx/examples/prepare_model_for_rsr.py -> build/bdist.linux-x86_64/wheel/./iotbx/examples copying build/lib/iotbx/examples/mtz_convert_free_to_work.py -> build/bdist.linux-x86_64/wheel/./iotbx/examples copying build/lib/iotbx/poscar.py -> build/bdist.linux-x86_64/wheel/./iotbx copying build/lib/iotbx/cif_mtz_data_labels.py -> build/bdist.linux-x86_64/wheel/./iotbx copying build/lib/iotbx/map_tools.py -> build/bdist.linux-x86_64/wheel/./iotbx creating build/bdist.linux-x86_64/wheel/iotbx/shelx copying build/lib/iotbx/shelx/parsers.py -> build/bdist.linux-x86_64/wheel/./iotbx/shelx copying build/lib/iotbx/shelx/tst_writer.py -> build/bdist.linux-x86_64/wheel/./iotbx/shelx copying build/lib/iotbx/shelx/tst_lex_parse_build.py -> build/bdist.linux-x86_64/wheel/./iotbx/shelx copying build/lib/iotbx/shelx/lexer.py -> build/bdist.linux-x86_64/wheel/./iotbx/shelx copying build/lib/iotbx/shelx/hklf.py -> build/bdist.linux-x86_64/wheel/./iotbx/shelx copying build/lib/iotbx/shelx/tst_fvar_encoding.py -> build/bdist.linux-x86_64/wheel/./iotbx/shelx copying build/lib/iotbx/shelx/tokens.py -> build/bdist.linux-x86_64/wheel/./iotbx/shelx copying build/lib/iotbx/shelx/fvar_encoding.py -> build/bdist.linux-x86_64/wheel/./iotbx/shelx copying build/lib/iotbx/shelx/writer.py -> build/bdist.linux-x86_64/wheel/./iotbx/shelx copying build/lib/iotbx/shelx/tst_hklf.py -> build/bdist.linux-x86_64/wheel/./iotbx/shelx copying build/lib/iotbx/shelx/__init__.py -> build/bdist.linux-x86_64/wheel/./iotbx/shelx copying build/lib/iotbx/shelx/crystal_symmetry_from_ins.py -> build/bdist.linux-x86_64/wheel/./iotbx/shelx copying build/lib/iotbx/shelx/write_ins.py -> build/bdist.linux-x86_64/wheel/./iotbx/shelx copying build/lib/iotbx/shelx/errors.py -> build/bdist.linux-x86_64/wheel/./iotbx/shelx copying build/lib/iotbx/shelx/fcf.py -> build/bdist.linux-x86_64/wheel/./iotbx/shelx copying build/lib/iotbx/data_plots.py -> build/bdist.linux-x86_64/wheel/./iotbx copying build/lib/iotbx/phil.py -> build/bdist.linux-x86_64/wheel/./iotbx creating build/bdist.linux-x86_64/wheel/iotbx/dtrek copying build/lib/iotbx/dtrek/reflnlist_reader.py -> build/bdist.linux-x86_64/wheel/./iotbx/dtrek copying build/lib/iotbx/dtrek/__init__.py -> build/bdist.linux-x86_64/wheel/./iotbx/dtrek copying build/lib/iotbx/dtrek/crystal_symmetry_from_ref.py -> build/bdist.linux-x86_64/wheel/./iotbx/dtrek copying build/lib/iotbx/dtrek/dtrek_symmetry_dict.py -> build/bdist.linux-x86_64/wheel/./iotbx/dtrek creating build/bdist.linux-x86_64/wheel/iotbx/fullprof copying build/lib/iotbx/fullprof/read_pcr.py -> build/bdist.linux-x86_64/wheel/./iotbx/fullprof copying build/lib/iotbx/fullprof/write_pcr.py -> build/bdist.linux-x86_64/wheel/./iotbx/fullprof copying build/lib/iotbx/fullprof/__init__.py -> build/bdist.linux-x86_64/wheel/./iotbx/fullprof creating build/bdist.linux-x86_64/wheel/iotbx/xds copying build/lib/iotbx/xds/xparm.py -> build/bdist.linux-x86_64/wheel/./iotbx/xds copying build/lib/iotbx/xds/xds_inp.py -> build/bdist.linux-x86_64/wheel/./iotbx/xds copying build/lib/iotbx/xds/gain_cbf.py -> build/bdist.linux-x86_64/wheel/./iotbx/xds copying build/lib/iotbx/xds/integrate_hkl.py -> build/bdist.linux-x86_64/wheel/./iotbx/xds copying build/lib/iotbx/xds/spot_xds.py -> build/bdist.linux-x86_64/wheel/./iotbx/xds copying build/lib/iotbx/xds/blank_cbf.py -> build/bdist.linux-x86_64/wheel/./iotbx/xds copying build/lib/iotbx/xds/__init__.py -> build/bdist.linux-x86_64/wheel/./iotbx/xds copying build/lib/iotbx/xds/geometry.py -> build/bdist.linux-x86_64/wheel/./iotbx/xds copying build/lib/iotbx/xds/read_ascii.py -> build/bdist.linux-x86_64/wheel/./iotbx/xds copying build/lib/iotbx/xds/correction.py -> build/bdist.linux-x86_64/wheel/./iotbx/xds copying build/lib/iotbx/xds/xds_cbf.py -> build/bdist.linux-x86_64/wheel/./iotbx/xds copying build/lib/iotbx/xds/crystal_symmetry_from_hkl.py -> build/bdist.linux-x86_64/wheel/./iotbx/xds copying build/lib/iotbx/pymol.py -> build/bdist.linux-x86_64/wheel/./iotbx creating build/bdist.linux-x86_64/wheel/iotbx/ccp4_map copying build/lib/iotbx/ccp4_map/__init__.py -> build/bdist.linux-x86_64/wheel/./iotbx/ccp4_map copying build/lib/iotbx/ccp4_map/tst.py -> build/bdist.linux-x86_64/wheel/./iotbx/ccp4_map copying build/lib/iotbx/ccp4_map/crystal_symmetry_from_ccp4_map.py -> build/bdist.linux-x86_64/wheel/./iotbx/ccp4_map copying build/lib/iotbx/logfiles.py -> build/bdist.linux-x86_64/wheel/./iotbx creating build/bdist.linux-x86_64/wheel/iotbx/xplor copying build/lib/iotbx/xplor/tst_xplormap.py -> build/bdist.linux-x86_64/wheel/./iotbx/xplor copying build/lib/iotbx/xplor/crystal_symmetry_from_map.py -> build/bdist.linux-x86_64/wheel/./iotbx/xplor copying build/lib/iotbx/xplor/map.py -> build/bdist.linux-x86_64/wheel/./iotbx/xplor copying build/lib/iotbx/xplor/__init__.py -> build/bdist.linux-x86_64/wheel/./iotbx/xplor copying build/lib/iotbx/xplor/ext.py -> build/bdist.linux-x86_64/wheel/./iotbx/xplor copying build/lib/iotbx/reflection_file_converter.py -> build/bdist.linux-x86_64/wheel/./iotbx copying build/lib/iotbx/table_one.py -> build/bdist.linux-x86_64/wheel/./iotbx copying build/lib/iotbx/simple_parser.py -> build/bdist.linux-x86_64/wheel/./iotbx copying build/lib/iotbx/map_model_manager.py -> build/bdist.linux-x86_64/wheel/./iotbx copying build/lib/iotbx/csv_utils.py -> build/bdist.linux-x86_64/wheel/./iotbx copying build/lib/iotbx/reflection_file_utils.py -> build/bdist.linux-x86_64/wheel/./iotbx copying build/lib/iotbx/phases.py -> build/bdist.linux-x86_64/wheel/./iotbx copying build/lib/iotbx/builders.py -> build/bdist.linux-x86_64/wheel/./iotbx creating build/bdist.linux-x86_64/wheel/iotbx/regression copying build/lib/iotbx/regression/tst_reflection_statistics.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_map_model_manager_call_consistency.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_map_model_manager_4.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_hierarchy_forward_compatible_pdb.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_map_manager_wrapping.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_pdb_link_records.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_generate_n_char_string.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_add_conformations.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_hierarchy_long_resname_2.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_wildcard.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_group_rounding.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_atom_selections_10k.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_cif_1.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_map_model_manager_2.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_simple_parser.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_file_reader.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_reflection_file_editor.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_show_systematic_absences.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_split_models.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_mmcif_input.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_hierarchy_long_resname_4.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_cli_parser.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_map_model_manager_model_sharpening_5_cif.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_mrc_io.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_hierarchy_long_resname_3.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_patterson.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_mmcif_segids.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_hierarchy_copy_select.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_hierarchy_long_resname_1.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_map_model_manager_half_map_sharpening_6.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_simple_map_coefficients.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_hierarchy_long_chain_ids_1.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_pdb_as_cif.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_map_manager.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_pdbx_mmcif_tutorial.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_pdb_cif_cells.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_mtz_as_cif.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_fetch.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_hierarchy_pdb_v3.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_map_model_manager_3.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_map_model_manager_local_resolution_10.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_phil.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_map_model_manager_9_remove_origin_shift_and_unit_cell_crystal_symmetry.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_mmcif_multimodel.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_reflection_file_reader.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_bioinformatics.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_hierarchy_occupancies_rounding.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_box_around_molecule.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_symmetry.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_export_scalepack_unmerged.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_miller_sort_asu.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_all_chain_ids.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_split_data_cif.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_sort_atoms.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/__init__.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_map_manager_2.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_examples.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_reflection_file_utils.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_map_model_manager_cif.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_map_model_manager.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_merging_statistics.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_map_model_manager_model_sharpening_5.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_pdb_as_fasta.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_pdb_cif_inputs.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_map_model_manager_external_sharpening_7.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_poscar.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_hierarchy_merge_atoms_at_end_to_residues.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_csv_utils.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_reindex.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_data_manager.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression creating build/bdist.linux-x86_64/wheel/iotbx/regression/ncs copying build/lib/iotbx/regression/ncs/tst_ncs_user_selections.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression/ncs copying build/lib/iotbx/regression/ncs/tst_ncs_groups_preprocessing.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression/ncs copying build/lib/iotbx/regression/ncs/tst_ncs_without_validation.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression/ncs copying build/lib/iotbx/regression/ncs/tst_ncs_search_shortcut_1.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression/ncs copying build/lib/iotbx/regression/ncs/tst_mtrix_biomt_cmdl.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression/ncs copying build/lib/iotbx/regression/ncs/__init__.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression/ncs copying build/lib/iotbx/regression/ncs/tst_ncs_input.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression/ncs copying build/lib/iotbx/regression/ncs/tst_ncs.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression/ncs copying build/lib/iotbx/regression/ncs/tst_ncs_reordered_chains.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression/ncs copying build/lib/iotbx/regression/ncs/tst_mmcif_biomt_reduction_output.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression/ncs copying build/lib/iotbx/regression/ncs/tst_ncs_search_broken_chain.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression/ncs copying build/lib/iotbx/regression/ncs/tst_ncs_search_ligs.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression/ncs copying build/lib/iotbx/regression/tst_selected_hierarchy_flip.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_hierarchy_altlocs.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_map_model_manager_9_remove_origin_shift_and_unit_cell_crystal_symmetry_cif.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_restraints_merge.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_xray_scale.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_mmcif_to_from_hierarchy.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_hierarchy_id_str.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_map_model_manager_tls_from_map_8.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_data_plots.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_phases.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_lattice_symmetry.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_crystal_symmetry_from_any.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/utils.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_map_tools.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_extract_xtal_data.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_cif_as_pdb_1atom.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/builders_depending_on_smtbx.py -> build/bdist.linux-x86_64/wheel/./iotbx copying build/lib/iotbx/reflection_file_reader.py -> build/bdist.linux-x86_64/wheel/./iotbx creating build/bdist.linux-x86_64/wheel/iotbx/data_manager copying build/lib/iotbx/data_manager/model.py -> build/bdist.linux-x86_64/wheel/./iotbx/data_manager copying build/lib/iotbx/data_manager/phil.py -> build/bdist.linux-x86_64/wheel/./iotbx/data_manager copying build/lib/iotbx/data_manager/ncs_spec.py -> build/bdist.linux-x86_64/wheel/./iotbx/data_manager copying build/lib/iotbx/data_manager/sequence.py -> build/bdist.linux-x86_64/wheel/./iotbx/data_manager copying build/lib/iotbx/data_manager/common.py -> build/bdist.linux-x86_64/wheel/./iotbx/data_manager copying build/lib/iotbx/data_manager/miller_array.py -> build/bdist.linux-x86_64/wheel/./iotbx/data_manager copying build/lib/iotbx/data_manager/real_map.py -> build/bdist.linux-x86_64/wheel/./iotbx/data_manager copying build/lib/iotbx/data_manager/__init__.py -> build/bdist.linux-x86_64/wheel/./iotbx/data_manager copying build/lib/iotbx/data_manager/restraint.py -> build/bdist.linux-x86_64/wheel/./iotbx/data_manager copying build/lib/iotbx/data_manager/map_coefficients.py -> build/bdist.linux-x86_64/wheel/./iotbx/data_manager creating build/bdist.linux-x86_64/wheel/iotbx/PrettyPrint copying build/lib/iotbx/PrettyPrint/tables.py -> build/bdist.linux-x86_64/wheel/./iotbx/PrettyPrint copying build/lib/iotbx/PrettyPrint/__init__.py -> build/bdist.linux-x86_64/wheel/./iotbx/PrettyPrint creating build/bdist.linux-x86_64/wheel/iotbx/dsn6 copying build/lib/iotbx/dsn6/__init__.py -> build/bdist.linux-x86_64/wheel/./iotbx/dsn6 copying build/lib/iotbx/dsn6/tst.py -> build/bdist.linux-x86_64/wheel/./iotbx/dsn6 creating build/bdist.linux-x86_64/wheel/iotbx/cif copying build/lib/iotbx/cif/citations.py -> build/bdist.linux-x86_64/wheel/./iotbx/cif copying build/lib/iotbx/cif/model.py -> build/bdist.linux-x86_64/wheel/./iotbx/cif copying build/lib/iotbx/cif/builders.py -> build/bdist.linux-x86_64/wheel/./iotbx/cif copying build/lib/iotbx/cif/validation.py -> build/bdist.linux-x86_64/wheel/./iotbx/cif copying build/lib/iotbx/cif/restraint_file_merge.py -> build/bdist.linux-x86_64/wheel/./iotbx/cif copying build/lib/iotbx/cif/__init__.py -> build/bdist.linux-x86_64/wheel/./iotbx/cif copying build/lib/iotbx/cif/geometry.py -> build/bdist.linux-x86_64/wheel/./iotbx/cif copying build/lib/iotbx/cif/errors.py -> build/bdist.linux-x86_64/wheel/./iotbx/cif copying build/lib/iotbx/cif/crystal_symmetry_from_cif.py -> build/bdist.linux-x86_64/wheel/./iotbx/cif copying build/lib/iotbx/cif/restraints.py -> build/bdist.linux-x86_64/wheel/./iotbx/cif copying build/lib/iotbx/cif/cod_tools.py -> build/bdist.linux-x86_64/wheel/./iotbx/cif creating build/bdist.linux-x86_64/wheel/iotbx/solve copying build/lib/iotbx/solve/crystal_symmetry_from_inp.py -> build/bdist.linux-x86_64/wheel/./iotbx/solve copying build/lib/iotbx/solve/fpfm_reader.py -> build/bdist.linux-x86_64/wheel/./iotbx/solve copying build/lib/iotbx/solve/__init__.py -> build/bdist.linux-x86_64/wheel/./iotbx/solve creating build/bdist.linux-x86_64/wheel/iotbx/mtz copying build/lib/iotbx/mtz/tst_miller_dict.py -> build/bdist.linux-x86_64/wheel/./iotbx/mtz copying build/lib/iotbx/mtz/tst_unmerged.py -> build/bdist.linux-x86_64/wheel/./iotbx/mtz copying build/lib/iotbx/mtz/tst_extract_from_symmetry_lib.py -> build/bdist.linux-x86_64/wheel/./iotbx/mtz copying build/lib/iotbx/mtz/tst_dano.py -> build/bdist.linux-x86_64/wheel/./iotbx/mtz copying build/lib/iotbx/mtz/extract_from_symmetry_lib.py -> build/bdist.linux-x86_64/wheel/./iotbx/mtz copying build/lib/iotbx/mtz/crystal_symmetry_from_mtz.py -> build/bdist.linux-x86_64/wheel/./iotbx/mtz copying build/lib/iotbx/mtz/__init__.py -> build/bdist.linux-x86_64/wheel/./iotbx/mtz copying build/lib/iotbx/mtz/tst.py -> build/bdist.linux-x86_64/wheel/./iotbx/mtz copying build/lib/iotbx/mtz/tst_ext.py -> build/bdist.linux-x86_64/wheel/./iotbx/mtz copying build/lib/iotbx/extract_xtal_data.py -> build/bdist.linux-x86_64/wheel/./iotbx creating build/bdist.linux-x86_64/wheel/iotbx/bioinformatics copying build/lib/iotbx/bioinformatics/pdb_info.py -> build/bdist.linux-x86_64/wheel/./iotbx/bioinformatics copying build/lib/iotbx/bioinformatics/pubmed.py -> build/bdist.linux-x86_64/wheel/./iotbx/bioinformatics copying build/lib/iotbx/bioinformatics/local_blast.py -> build/bdist.linux-x86_64/wheel/./iotbx/bioinformatics copying build/lib/iotbx/bioinformatics/xmlbuild.py -> build/bdist.linux-x86_64/wheel/./iotbx/bioinformatics copying build/lib/iotbx/bioinformatics/ncbi_blast_xml.py -> build/bdist.linux-x86_64/wheel/./iotbx/bioinformatics copying build/lib/iotbx/bioinformatics/ebi_wu_blast_xml.py -> build/bdist.linux-x86_64/wheel/./iotbx/bioinformatics copying build/lib/iotbx/bioinformatics/homologues.py -> build/bdist.linux-x86_64/wheel/./iotbx/bioinformatics copying build/lib/iotbx/bioinformatics/__init__.py -> build/bdist.linux-x86_64/wheel/./iotbx/bioinformatics copying build/lib/iotbx/bioinformatics/alignment_as_hsearch.py -> build/bdist.linux-x86_64/wheel/./iotbx/bioinformatics copying build/lib/iotbx/bioinformatics/structure.py -> build/bdist.linux-x86_64/wheel/./iotbx/bioinformatics copying build/lib/iotbx/wildcard.py -> build/bdist.linux-x86_64/wheel/./iotbx copying build/lib/iotbx/option_parser.py -> build/bdist.linux-x86_64/wheel/./iotbx creating build/bdist.linux-x86_64/wheel/iotbx/scalepack copying build/lib/iotbx/scalepack/tst_merge.py -> build/bdist.linux-x86_64/wheel/./iotbx/scalepack copying build/lib/iotbx/scalepack/tst_no_merge_original_index.py -> build/bdist.linux-x86_64/wheel/./iotbx/scalepack copying build/lib/iotbx/scalepack/merge.py -> build/bdist.linux-x86_64/wheel/./iotbx/scalepack copying build/lib/iotbx/scalepack/no_merge_original_index.py -> build/bdist.linux-x86_64/wheel/./iotbx/scalepack copying build/lib/iotbx/scalepack/space_group_dictionary.py -> build/bdist.linux-x86_64/wheel/./iotbx/scalepack copying build/lib/iotbx/scalepack/__init__.py -> build/bdist.linux-x86_64/wheel/./iotbx/scalepack copying build/lib/iotbx/scalepack/crystal_symmetry_from_hkl.py -> build/bdist.linux-x86_64/wheel/./iotbx/scalepack copying build/lib/iotbx/symmetry.py -> build/bdist.linux-x86_64/wheel/./iotbx creating build/bdist.linux-x86_64/wheel/iotbx/detectors copying build/lib/iotbx/detectors/tst_adsc.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors copying build/lib/iotbx/detectors/macscience.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors copying build/lib/iotbx/detectors/dtrek.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors copying build/lib/iotbx/detectors/tst_py_cbf.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors copying build/lib/iotbx/detectors/tst_cbf_comp_read_meth.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors copying build/lib/iotbx/detectors/cbf.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors copying build/lib/iotbx/detectors/test_mar.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors copying build/lib/iotbx/detectors/detectorbase.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors copying build/lib/iotbx/detectors/adsc.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors copying build/lib/iotbx/detectors/noir.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors copying build/lib/iotbx/detectors/edf.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors copying build/lib/iotbx/detectors/pilatus_slice.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors copying build/lib/iotbx/detectors/raxisbase.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors copying build/lib/iotbx/detectors/adsc_module.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors copying build/lib/iotbx/detectors/mar.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors copying build/lib/iotbx/detectors/adsc_minicbf.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors creating build/bdist.linux-x86_64/wheel/iotbx/detectors/context copying build/lib/iotbx/detectors/context/endstation_max_iv_trial.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors/context copying build/lib/iotbx/detectors/context/spot_xy_convention.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors/context copying build/lib/iotbx/detectors/context/config_detector.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors/context copying build/lib/iotbx/detectors/context/endstation.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors/context copying build/lib/iotbx/detectors/context/camera_convention.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors/context copying build/lib/iotbx/detectors/context/__init__.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors/context copying build/lib/iotbx/detectors/tst_detectors.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors copying build/lib/iotbx/detectors/generic_detector.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors copying build/lib/iotbx/detectors/tst_debug_write.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors copying build/lib/iotbx/detectors/eiger.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors copying build/lib/iotbx/detectors/saturn.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors copying build/lib/iotbx/detectors/beam_center_convention.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors copying build/lib/iotbx/detectors/pilatus_minicbf.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors copying build/lib/iotbx/detectors/eiger_minicbf.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors copying build/lib/iotbx/detectors/__init__.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors copying build/lib/iotbx/detectors/hamamatsu.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors creating build/bdist.linux-x86_64/wheel/iotbx/detectors/util copying build/lib/iotbx/detectors/util/__init__.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors/util copying build/lib/iotbx/detectors/util/filters.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors/util copying build/lib/iotbx/detectors/url_support.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors copying build/lib/iotbx/detectors/test_raxis2.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors copying build/lib/iotbx/detectors/raxis.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors copying build/lib/iotbx/detectors/bruker.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors copying build/lib/iotbx/detectors/marIP.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors copying build/lib/iotbx/detectors/active_area_filter.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors copying build/lib/iotbx/detectors/raxis_nonsquare.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors copying build/lib/iotbx/detectors/image_from_http_request.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors copying build/lib/iotbx/detectors/cspad_detector_formats.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors copying build/lib/iotbx/detectors/npy.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors copying build/lib/iotbx/__init__.py -> build/bdist.linux-x86_64/wheel/./iotbx copying build/lib/iotbx/ranges.py -> build/bdist.linux-x86_64/wheel/./iotbx creating build/bdist.linux-x86_64/wheel/iotbx/gui_tools copying build/lib/iotbx/gui_tools/import_data_and_flags.py -> build/bdist.linux-x86_64/wheel/./iotbx/gui_tools copying build/lib/iotbx/gui_tools/reflections.py -> build/bdist.linux-x86_64/wheel/./iotbx/gui_tools copying build/lib/iotbx/gui_tools/cif_conversions.py -> build/bdist.linux-x86_64/wheel/./iotbx/gui_tools copying build/lib/iotbx/gui_tools/__init__.py -> build/bdist.linux-x86_64/wheel/./iotbx/gui_tools copying build/lib/iotbx/gui_tools/models.py -> build/bdist.linux-x86_64/wheel/./iotbx/gui_tools copying build/lib/iotbx/gui_tools/tst.py -> build/bdist.linux-x86_64/wheel/./iotbx/gui_tools copying build/lib/iotbx/reflection_file_editor.py -> build/bdist.linux-x86_64/wheel/./iotbx copying build/lib/iotbx/run_tests.py -> build/bdist.linux-x86_64/wheel/./iotbx copying build/lib/iotbx/map_manager.py -> build/bdist.linux-x86_64/wheel/./iotbx creating build/bdist.linux-x86_64/wheel/iotbx/mrcfile copying build/lib/iotbx/mrcfile/__init__.py -> build/bdist.linux-x86_64/wheel/./iotbx/mrcfile copying build/lib/iotbx/mrcfile/crystal_symmetry_from_ccp4_map.py -> build/bdist.linux-x86_64/wheel/./iotbx/mrcfile creating build/bdist.linux-x86_64/wheel/iotbx/kriber copying build/lib/iotbx/kriber/strudat.py -> build/bdist.linux-x86_64/wheel/./iotbx/kriber copying build/lib/iotbx/kriber/__init__.py -> build/bdist.linux-x86_64/wheel/./iotbx/kriber copying build/lib/iotbx/kriber/tst_strudat.py -> build/bdist.linux-x86_64/wheel/./iotbx/kriber copying build/lib/iotbx/libtbx_refresh.py -> build/bdist.linux-x86_64/wheel/./iotbx creating build/bdist.linux-x86_64/wheel/iotbx/pdb copying build/lib/iotbx/pdb/download.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/tst_rna_dna_atom_names.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/remark_290_interpretation.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/tst_extract_rfactors_resolutions_sigma.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/cryst1_interpretation.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/amino_acid_codes.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/tst_hierarchy_flip_symmetric.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/aa_utils.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/nucleic_acid_codes.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/tst_secondary_structure.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/remark_2_interpretation.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/tst_hierarchy_flip_symmetric_2.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/web_service_api.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/mmcif.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/tst_atom_selection.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/remark_3_interpretation.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/tst_secondary_structure_2.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/tst_hierarchy.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/tst_utils.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/pdbe.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/extract_rfactors_resolutions_sigma.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/modified_aa_names.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/hierarchy.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/atom_name_interpretation.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/secondary_structure.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/tst_atom_selection_string.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/experiment_type.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/tst_hierarchy_atom_sort.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/tst_pdb.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/atom_selection.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/xray_structure.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/forward_compatible_pdb_cif_conversion.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/__init__.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/tst_read_mtrix_records_from_cif.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/rna_dna_detection.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/tst_mmcif_hierarchy.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/modified_rna_dna_names.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/hybrid_36.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb creating build/bdist.linux-x86_64/wheel/iotbx/pdb/remediation copying build/lib/iotbx/pdb/remediation/remediator.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb/remediation copying build/lib/iotbx/pdb/remediation/__init__.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb/remediation copying build/lib/iotbx/pdb/remediation/tst_remediator.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb/remediation copying build/lib/iotbx/pdb/tst_atom_name_interpretation.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/tst_mmcif.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/rcsb.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/tst_tls.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/misc_records_output.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/tst_mmcif_hierarchy_2.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/crystal_symmetry_from_pdb.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/fetch.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/records.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/tst_ext.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/utils.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/pdb_v3_cif_conversion.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb creating build/bdist.linux-x86_64/wheel/iotbx/ncs copying build/lib/iotbx/ncs/__init__.py -> build/bdist.linux-x86_64/wheel/./iotbx/ncs copying build/lib/iotbx/file_reader.py -> build/bdist.linux-x86_64/wheel/./iotbx creating build/bdist.linux-x86_64/wheel/iotbx/programs copying build/lib/iotbx/programs/split_data_cif.py -> build/bdist.linux-x86_64/wheel/./iotbx/programs copying build/lib/iotbx/programs/unique_with_biomt.py -> build/bdist.linux-x86_64/wheel/./iotbx/programs copying build/lib/iotbx/programs/box_around_molecule.py -> build/bdist.linux-x86_64/wheel/./iotbx/programs copying build/lib/iotbx/programs/__init__.py -> build/bdist.linux-x86_64/wheel/./iotbx/programs copying build/lib/iotbx/cli_parser.py -> build/bdist.linux-x86_64/wheel/./iotbx copying build/lib/iotbx/merging_statistics.py -> build/bdist.linux-x86_64/wheel/./iotbx copying build/lib/iotbx/format.py -> build/bdist.linux-x86_64/wheel/./iotbx copying build/lib/iotbx/crystal_symmetry_from_any.py -> build/bdist.linux-x86_64/wheel/./iotbx copying build/lib/iotbx/mtrix_biomt.py -> build/bdist.linux-x86_64/wheel/./iotbx creating build/bdist.linux-x86_64/wheel/iotbx/cns copying build/lib/iotbx/cns/crystal_symmetry_from_inp.py -> build/bdist.linux-x86_64/wheel/./iotbx/cns copying build/lib/iotbx/cns/reflection_reader.py -> build/bdist.linux-x86_64/wheel/./iotbx/cns copying build/lib/iotbx/cns/crystal_symmetry_utils.py -> build/bdist.linux-x86_64/wheel/./iotbx/cns copying build/lib/iotbx/cns/sdb_reader.py -> build/bdist.linux-x86_64/wheel/./iotbx/cns copying build/lib/iotbx/cns/sdb_writer.py -> build/bdist.linux-x86_64/wheel/./iotbx/cns copying build/lib/iotbx/cns/tst_cns.py -> build/bdist.linux-x86_64/wheel/./iotbx/cns copying build/lib/iotbx/cns/xray_structure.py -> build/bdist.linux-x86_64/wheel/./iotbx/cns copying build/lib/iotbx/cns/miller_array.py -> build/bdist.linux-x86_64/wheel/./iotbx/cns copying build/lib/iotbx/cns/__init__.py -> build/bdist.linux-x86_64/wheel/./iotbx/cns copying build/lib/iotbx/cns/space_group_symbols.py -> build/bdist.linux-x86_64/wheel/./iotbx/cns copying build/lib/iotbx/cns/crystal_symmetry_from_sdb.py -> build/bdist.linux-x86_64/wheel/./iotbx/cns copying build/lib/iotbx/cns/pdb_remarks.py -> build/bdist.linux-x86_64/wheel/./iotbx/cns copying build/lib/iotbx/cns/index_fobs_sigma_reader.py -> build/bdist.linux-x86_64/wheel/./iotbx/cns creating build/bdist.linux-x86_64/wheel/qttbx copying build/lib/qttbx/phil.py -> build/bdist.linux-x86_64/wheel/./qttbx copying build/lib/qttbx/__init__.py -> build/bdist.linux-x86_64/wheel/./qttbx creating build/bdist.linux-x86_64/wheel/qttbx/viewers copying build/lib/qttbx/viewers/__init__.py -> build/bdist.linux-x86_64/wheel/./qttbx/viewers copying build/lib/qttbx/viewers/chimerax.py -> build/bdist.linux-x86_64/wheel/./qttbx/viewers creating build/bdist.linux-x86_64/wheel/simtbx creating build/bdist.linux-x86_64/wheel/simtbx/gpu copying build/lib/simtbx/gpu/tst_shoeboxes.py -> build/bdist.linux-x86_64/wheel/./simtbx/gpu copying build/lib/simtbx/gpu/tst_gpu_multisource_background.py -> build/bdist.linux-x86_64/wheel/./simtbx/gpu copying build/lib/simtbx/gpu/__init__.py -> build/bdist.linux-x86_64/wheel/./simtbx/gpu copying build/lib/simtbx/gpu/tst_exafel_api.py -> build/bdist.linux-x86_64/wheel/./simtbx/gpu creating build/bdist.linux-x86_64/wheel/simtbx/kokkos copying build/lib/simtbx/kokkos/tst_kokkos_lib.py -> build/bdist.linux-x86_64/wheel/./simtbx/kokkos copying build/lib/simtbx/kokkos/__init__.py -> build/bdist.linux-x86_64/wheel/./simtbx/kokkos creating build/bdist.linux-x86_64/wheel/simtbx/pixel copying build/lib/simtbx/pixel/__init__.py -> build/bdist.linux-x86_64/wheel/./simtbx/pixel creating build/bdist.linux-x86_64/wheel/simtbx/diffBragg copying build/lib/simtbx/diffBragg/ensemble_refine_launcher.py -> build/bdist.linux-x86_64/wheel/./simtbx/diffBragg copying build/lib/simtbx/diffBragg/phil.py -> build/bdist.linux-x86_64/wheel/./simtbx/diffBragg copying build/lib/simtbx/diffBragg/psf.py -> build/bdist.linux-x86_64/wheel/./simtbx/diffBragg copying build/lib/simtbx/diffBragg/attr_list.py -> build/bdist.linux-x86_64/wheel/./simtbx/diffBragg copying build/lib/simtbx/diffBragg/device.py -> build/bdist.linux-x86_64/wheel/./simtbx/diffBragg creating build/bdist.linux-x86_64/wheel/simtbx/diffBragg/refiners creating build/bdist.linux-x86_64/wheel/simtbx/diffBragg/refiners/crystal_systems copying build/lib/simtbx/diffBragg/refiners/crystal_systems/manager.py -> build/bdist.linux-x86_64/wheel/./simtbx/diffBragg/refiners/crystal_systems copying build/lib/simtbx/diffBragg/refiners/crystal_systems/tetragonal.py -> build/bdist.linux-x86_64/wheel/./simtbx/diffBragg/refiners/crystal_systems copying build/lib/simtbx/diffBragg/refiners/crystal_systems/__init__.py -> build/bdist.linux-x86_64/wheel/./simtbx/diffBragg/refiners/crystal_systems copying build/lib/simtbx/diffBragg/refiners/crystal_systems/orthorhombic.py -> build/bdist.linux-x86_64/wheel/./simtbx/diffBragg/refiners/crystal_systems copying build/lib/simtbx/diffBragg/refiners/crystal_systems/monoclinic.py -> build/bdist.linux-x86_64/wheel/./simtbx/diffBragg/refiners/crystal_systems copying build/lib/simtbx/diffBragg/refiners/crystal_systems/hexagonal.py -> build/bdist.linux-x86_64/wheel/./simtbx/diffBragg/refiners/crystal_systems copying build/lib/simtbx/diffBragg/refiners/parameters.py -> build/bdist.linux-x86_64/wheel/./simtbx/diffBragg/refiners copying build/lib/simtbx/diffBragg/refiners/stage_two_refiner.py -> build/bdist.linux-x86_64/wheel/./simtbx/diffBragg/refiners copying build/lib/simtbx/diffBragg/refiners/__init__.py -> build/bdist.linux-x86_64/wheel/./simtbx/diffBragg/refiners copying build/lib/simtbx/diffBragg/refiners/geometry.py -> build/bdist.linux-x86_64/wheel/./simtbx/diffBragg/refiners copying build/lib/simtbx/diffBragg/refiners/base_refiner.py -> build/bdist.linux-x86_64/wheel/./simtbx/diffBragg/refiners copying build/lib/simtbx/diffBragg/hopper_io.py -> build/bdist.linux-x86_64/wheel/./simtbx/diffBragg copying build/lib/simtbx/diffBragg/mpi_logger.py -> build/bdist.linux-x86_64/wheel/./simtbx/diffBragg copying build/lib/simtbx/diffBragg/hopper_ensemble_utils.py -> build/bdist.linux-x86_64/wheel/./simtbx/diffBragg copying build/lib/simtbx/diffBragg/hopper_utils.py -> build/bdist.linux-x86_64/wheel/./simtbx/diffBragg copying build/lib/simtbx/diffBragg/prep_stage2_input.py -> build/bdist.linux-x86_64/wheel/./simtbx/diffBragg copying build/lib/simtbx/diffBragg/stage_two_utils.py -> build/bdist.linux-x86_64/wheel/./simtbx/diffBragg copying build/lib/simtbx/diffBragg/__init__.py -> build/bdist.linux-x86_64/wheel/./simtbx/diffBragg copying build/lib/simtbx/diffBragg/parameter_errors.py -> build/bdist.linux-x86_64/wheel/./simtbx/diffBragg copying build/lib/simtbx/diffBragg/utils.py -> build/bdist.linux-x86_64/wheel/./simtbx/diffBragg copying build/lib/simtbx/__init__.py -> build/bdist.linux-x86_64/wheel/./simtbx copying build/lib/simtbx/run_tests.py -> build/bdist.linux-x86_64/wheel/./simtbx creating build/bdist.linux-x86_64/wheel/simtbx/nanoBragg copying build/lib/simtbx/nanoBragg/nanoBragg_crystal.py -> build/bdist.linux-x86_64/wheel/./simtbx/nanoBragg copying build/lib/simtbx/nanoBragg/nanoBragg_gui_init.py -> build/bdist.linux-x86_64/wheel/./simtbx/nanoBragg copying build/lib/simtbx/nanoBragg/nanoBragg_input.py -> build/bdist.linux-x86_64/wheel/./simtbx/nanoBragg copying build/lib/simtbx/nanoBragg/tst_multisource_background.py -> build/bdist.linux-x86_64/wheel/./simtbx/nanoBragg copying build/lib/simtbx/nanoBragg/tst_nanoBragg_minimal.py -> build/bdist.linux-x86_64/wheel/./simtbx/nanoBragg copying build/lib/simtbx/nanoBragg/tst_anisotropic_mosaicity.py -> build/bdist.linux-x86_64/wheel/./simtbx/nanoBragg copying build/lib/simtbx/nanoBragg/tst_nanoBragg_basic.py -> build/bdist.linux-x86_64/wheel/./simtbx/nanoBragg copying build/lib/simtbx/nanoBragg/tst_gaussian_mosaicity2.py -> build/bdist.linux-x86_64/wheel/./simtbx/nanoBragg copying build/lib/simtbx/nanoBragg/tst_nanoBragg_pilatus.py -> build/bdist.linux-x86_64/wheel/./simtbx/nanoBragg copying build/lib/simtbx/nanoBragg/nanoBragg_gui_dialogs.py -> build/bdist.linux-x86_64/wheel/./simtbx/nanoBragg copying build/lib/simtbx/nanoBragg/tst_gaussian_mosaicity.py -> build/bdist.linux-x86_64/wheel/./simtbx/nanoBragg copying build/lib/simtbx/nanoBragg/sim_data.py -> build/bdist.linux-x86_64/wheel/./simtbx/nanoBragg copying build/lib/simtbx/nanoBragg/nanoBragg_beam.py -> build/bdist.linux-x86_64/wheel/./simtbx/nanoBragg copying build/lib/simtbx/nanoBragg/nanoBragg_threads.py -> build/bdist.linux-x86_64/wheel/./simtbx/nanoBragg copying build/lib/simtbx/nanoBragg/__init__.py -> build/bdist.linux-x86_64/wheel/./simtbx/nanoBragg copying build/lib/simtbx/nanoBragg/tst_nanoBragg_cbf_write.py -> build/bdist.linux-x86_64/wheel/./simtbx/nanoBragg copying build/lib/simtbx/nanoBragg/tst_nanoBragg_multipanel.py -> build/bdist.linux-x86_64/wheel/./simtbx/nanoBragg copying build/lib/simtbx/nanoBragg/tst_gauss_argchk.py -> build/bdist.linux-x86_64/wheel/./simtbx/nanoBragg copying build/lib/simtbx/nanoBragg/tst_nanoBragg_mosaic.py -> build/bdist.linux-x86_64/wheel/./simtbx/nanoBragg copying build/lib/simtbx/nanoBragg/nanoBragg_gui_frames.py -> build/bdist.linux-x86_64/wheel/./simtbx/nanoBragg copying build/lib/simtbx/nanoBragg/anisotropic_mosaicity.py -> build/bdist.linux-x86_64/wheel/./simtbx/nanoBragg copying build/lib/simtbx/nanoBragg/utils.py -> build/bdist.linux-x86_64/wheel/./simtbx/nanoBragg creating build/bdist.linux-x86_64/wheel/simtbx/modeling copying build/lib/simtbx/modeling/FormatHDF5AttributeGeometry.py -> build/bdist.linux-x86_64/wheel/./simtbx/modeling copying build/lib/simtbx/modeling/__init__.py -> build/bdist.linux-x86_64/wheel/./simtbx/modeling copying build/lib/simtbx/modeling/forward_models.py -> build/bdist.linux-x86_64/wheel/./simtbx/modeling copying build/lib/simtbx/modeling/predictions.py -> build/bdist.linux-x86_64/wheel/./simtbx/modeling creating build/bdist.linux-x86_64/wheel/omptbx copying build/lib/omptbx/__init__.py -> build/bdist.linux-x86_64/wheel/./omptbx copying build/lib/omptbx/tst.py -> build/bdist.linux-x86_64/wheel/./omptbx creating build/bdist.linux-x86_64/wheel/xcif creating build/bdist.linux-x86_64/wheel/xcif/regression copying build/lib/xcif/regression/tst_bindings.py -> build/bdist.linux-x86_64/wheel/./xcif/regression copying build/lib/xcif/regression/tst_example_tokenize.py -> build/bdist.linux-x86_64/wheel/./xcif/regression copying build/lib/xcif/regression/tst_utf8.py -> build/bdist.linux-x86_64/wheel/./xcif/regression copying build/lib/xcif/regression/tst_pdb_coordinates.py -> build/bdist.linux-x86_64/wheel/./xcif/regression copying build/lib/xcif/regression/tst_iotbx_cif_reader_parity.py -> build/bdist.linux-x86_64/wheel/./xcif/regression copying build/lib/xcif/regression/tst_gil_release.py -> build/bdist.linux-x86_64/wheel/./xcif/regression copying build/lib/xcif/regression/tst_semicolon_field_strict.py -> build/bdist.linux-x86_64/wheel/./xcif/regression copying build/lib/xcif/regression/tst_string_interning.py -> build/bdist.linux-x86_64/wheel/./xcif/regression copying build/lib/xcif/regression/tst_quoted_string_delimiter.py -> build/bdist.linux-x86_64/wheel/./xcif/regression copying build/lib/xcif/regression/tst_non_strict_mode.py -> build/bdist.linux-x86_64/wheel/./xcif/regression copying build/lib/xcif/regression/tst_example_parse.py -> build/bdist.linux-x86_64/wheel/./xcif/regression copying build/lib/xcif/regression/tst_memory.py -> build/bdist.linux-x86_64/wheel/./xcif/regression copying build/lib/xcif/regression/tst_iotbx_cif_reader_engine.py -> build/bdist.linux-x86_64/wheel/./xcif/regression copying build/lib/xcif/regression/tst_api_compat.py -> build/bdist.linux-x86_64/wheel/./xcif/regression copying build/lib/xcif/regression/tst_roundtrip.py -> build/bdist.linux-x86_64/wheel/./xcif/regression copying build/lib/xcif/regression/__init__.py -> build/bdist.linux-x86_64/wheel/./xcif/regression copying build/lib/xcif/regression/tst_parse_verify.py -> build/bdist.linux-x86_64/wheel/./xcif/regression copying build/lib/xcif/regression/tst_pdb_sf.py -> build/bdist.linux-x86_64/wheel/./xcif/regression creating build/bdist.linux-x86_64/wheel/xcif/benchmarks copying build/lib/xcif/benchmarks/__init__.py -> build/bdist.linux-x86_64/wheel/./xcif/benchmarks copying build/lib/xcif/benchmarks/run_benchmarks.py -> build/bdist.linux-x86_64/wheel/./xcif/benchmarks copying build/lib/xcif/__init__.py -> build/bdist.linux-x86_64/wheel/./xcif copying build/lib/xcif/run_tests.py -> build/bdist.linux-x86_64/wheel/./xcif creating build/bdist.linux-x86_64/wheel/fast_linalg copying build/lib/fast_linalg/__init__.py -> build/bdist.linux-x86_64/wheel/./fast_linalg creating build/bdist.linux-x86_64/wheel/serialtbx creating build/bdist.linux-x86_64/wheel/serialtbx/detector creating build/bdist.linux-x86_64/wheel/serialtbx/detector/legacy_metrology copying build/lib/serialtbx/detector/legacy_metrology/metrology.py -> build/bdist.linux-x86_64/wheel/./serialtbx/detector/legacy_metrology copying build/lib/serialtbx/detector/legacy_metrology/generic_detector.py -> build/bdist.linux-x86_64/wheel/./serialtbx/detector/legacy_metrology copying build/lib/serialtbx/detector/legacy_metrology/__init__.py -> build/bdist.linux-x86_64/wheel/./serialtbx/detector/legacy_metrology copying build/lib/serialtbx/detector/legacy_metrology/cspad_detector.py -> build/bdist.linux-x86_64/wheel/./serialtbx/detector/legacy_metrology copying build/lib/serialtbx/detector/rayonix.py -> build/bdist.linux-x86_64/wheel/./serialtbx/detector copying build/lib/serialtbx/detector/cspad.py -> build/bdist.linux-x86_64/wheel/./serialtbx/detector copying build/lib/serialtbx/detector/__init__.py -> build/bdist.linux-x86_64/wheel/./serialtbx/detector copying build/lib/serialtbx/detector/xtc.py -> build/bdist.linux-x86_64/wheel/./serialtbx/detector copying build/lib/serialtbx/detector/jungfrau.py -> build/bdist.linux-x86_64/wheel/./serialtbx/detector creating build/bdist.linux-x86_64/wheel/serialtbx/mono_simulation copying build/lib/serialtbx/mono_simulation/util.py -> build/bdist.linux-x86_64/wheel/./serialtbx/mono_simulation copying build/lib/serialtbx/mono_simulation/__init__.py -> build/bdist.linux-x86_64/wheel/./serialtbx/mono_simulation copying build/lib/serialtbx/mono_simulation/max_like.py -> build/bdist.linux-x86_64/wheel/./serialtbx/mono_simulation copying build/lib/serialtbx/__init__.py -> build/bdist.linux-x86_64/wheel/./serialtbx creating build/bdist.linux-x86_64/wheel/serialtbx/util copying build/lib/serialtbx/util/energy_scan_notch_finder.py -> build/bdist.linux-x86_64/wheel/./serialtbx/util copying build/lib/serialtbx/util/construct_frame.py -> build/bdist.linux-x86_64/wheel/./serialtbx/util copying build/lib/serialtbx/util/__init__.py -> build/bdist.linux-x86_64/wheel/./serialtbx/util copying build/lib/serialtbx/util/time.py -> build/bdist.linux-x86_64/wheel/./serialtbx/util creating build/bdist.linux-x86_64/wheel/scitbx creating build/bdist.linux-x86_64/wheel/scitbx/command_line copying build/lib/scitbx/command_line/show_sizes.py -> build/bdist.linux-x86_64/wheel/./scitbx/command_line copying build/lib/scitbx/command_line/histogram.py -> build/bdist.linux-x86_64/wheel/./scitbx/command_line copying build/lib/scitbx/command_line/generate_error_h.py -> build/bdist.linux-x86_64/wheel/./scitbx/command_line copying build/lib/scitbx/command_line/show_exp_times.py -> build/bdist.linux-x86_64/wheel/./scitbx/command_line copying build/lib/scitbx/command_line/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/command_line copying build/lib/scitbx/command_line/apply_tapenade_hints.py -> build/bdist.linux-x86_64/wheel/./scitbx/command_line copying build/lib/scitbx/command_line/unicode_examples.py -> build/bdist.linux-x86_64/wheel/./scitbx/command_line creating build/bdist.linux-x86_64/wheel/scitbx/examples copying build/lib/scitbx/examples/bootstrap.py -> build/bdist.linux-x86_64/wheel/./scitbx/examples copying build/lib/scitbx/examples/integrating_a_weighted_sinc_function.py -> build/bdist.linux-x86_64/wheel/./scitbx/examples copying build/lib/scitbx/examples/functions.py -> build/bdist.linux-x86_64/wheel/./scitbx/examples copying build/lib/scitbx/examples/minimizer_comparisons.py -> build/bdist.linux-x86_64/wheel/./scitbx/examples copying build/lib/scitbx/examples/lbfgs_linear_least_squares_fit.py -> build/bdist.linux-x86_64/wheel/./scitbx/examples copying build/lib/scitbx/examples/flex_array_loops.py -> build/bdist.linux-x86_64/wheel/./scitbx/examples copying build/lib/scitbx/examples/principal_axes_of_inertia.py -> build/bdist.linux-x86_64/wheel/./scitbx/examples copying build/lib/scitbx/examples/immoptibox_ports.py -> build/bdist.linux-x86_64/wheel/./scitbx/examples copying build/lib/scitbx/examples/chebyshev_lsq_example.py -> build/bdist.linux-x86_64/wheel/./scitbx/examples copying build/lib/scitbx/examples/flex_grid.py -> build/bdist.linux-x86_64/wheel/./scitbx/examples copying build/lib/scitbx/examples/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/examples copying build/lib/scitbx/examples/lbfgs_recipe.py -> build/bdist.linux-x86_64/wheel/./scitbx/examples creating build/bdist.linux-x86_64/wheel/scitbx/examples/bevington copying build/lib/scitbx/examples/bevington/silver.py -> build/bdist.linux-x86_64/wheel/./scitbx/examples/bevington copying build/lib/scitbx/examples/bevington/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/examples/bevington copying build/lib/scitbx/examples/rigid_body_refinement_core.py -> build/bdist.linux-x86_64/wheel/./scitbx/examples copying build/lib/scitbx/simplex.py -> build/bdist.linux-x86_64/wheel/./scitbx creating build/bdist.linux-x86_64/wheel/scitbx/stl copying build/lib/scitbx/stl/tst_map.py -> build/bdist.linux-x86_64/wheel/./scitbx/stl copying build/lib/scitbx/stl/vector.py -> build/bdist.linux-x86_64/wheel/./scitbx/stl copying build/lib/scitbx/stl/set.py -> build/bdist.linux-x86_64/wheel/./scitbx/stl copying build/lib/scitbx/stl/map.py -> build/bdist.linux-x86_64/wheel/./scitbx/stl copying build/lib/scitbx/stl/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/stl copying build/lib/scitbx/stl/tst_set.py -> build/bdist.linux-x86_64/wheel/./scitbx/stl copying build/lib/scitbx/stl/tst_vector.py -> build/bdist.linux-x86_64/wheel/./scitbx/stl creating build/bdist.linux-x86_64/wheel/scitbx/stdlib copying build/lib/scitbx/stdlib/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/stdlib copying build/lib/scitbx/minimizers.py -> build/bdist.linux-x86_64/wheel/./scitbx creating build/bdist.linux-x86_64/wheel/scitbx/suffixtree creating build/bdist.linux-x86_64/wheel/scitbx/suffixtree/test copying build/lib/scitbx/suffixtree/test/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/suffixtree/test copying build/lib/scitbx/suffixtree/test/tst_single.py -> build/bdist.linux-x86_64/wheel/./scitbx/suffixtree/test copying build/lib/scitbx/suffixtree/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/suffixtree creating build/bdist.linux-x86_64/wheel/scitbx/suffixtree/boost_python copying build/lib/scitbx/suffixtree/boost_python/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/suffixtree/boost_python copying build/lib/scitbx/suffixtree/single.py -> build/bdist.linux-x86_64/wheel/./scitbx/suffixtree creating build/bdist.linux-x86_64/wheel/scitbx/lbfgs creating build/bdist.linux-x86_64/wheel/scitbx/lbfgs/dev copying build/lib/scitbx/lbfgs/dev/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/lbfgs/dev copying build/lib/scitbx/lbfgs/dev/twisted_gaussian.py -> build/bdist.linux-x86_64/wheel/./scitbx/lbfgs/dev copying build/lib/scitbx/lbfgs/dev/run.py -> build/bdist.linux-x86_64/wheel/./scitbx/lbfgs/dev copying build/lib/scitbx/lbfgs/tst_func_free_line_search.py -> build/bdist.linux-x86_64/wheel/./scitbx/lbfgs copying build/lib/scitbx/lbfgs/tst_curvatures.py -> build/bdist.linux-x86_64/wheel/./scitbx/lbfgs copying build/lib/scitbx/lbfgs/tst_mpi_split_evaluator.py -> build/bdist.linux-x86_64/wheel/./scitbx/lbfgs copying build/lib/scitbx/lbfgs/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/lbfgs copying build/lib/scitbx/lbfgs/tst_lbfgs_fem.py -> build/bdist.linux-x86_64/wheel/./scitbx/lbfgs copying build/lib/scitbx/lbfgs/tst_ext.py -> build/bdist.linux-x86_64/wheel/./scitbx/lbfgs creating build/bdist.linux-x86_64/wheel/scitbx/graph copying build/lib/scitbx/graph/test_cases_tardy_pdb.py -> build/bdist.linux-x86_64/wheel/./scitbx/graph copying build/lib/scitbx/graph/rigidity_matrix_symbolic.py -> build/bdist.linux-x86_64/wheel/./scitbx/graph copying build/lib/scitbx/graph/tst_utils.py -> build/bdist.linux-x86_64/wheel/./scitbx/graph copying build/lib/scitbx/graph/tst_rigidity.py -> build/bdist.linux-x86_64/wheel/./scitbx/graph copying build/lib/scitbx/graph/tst_tardy_tree_find_paths.py -> build/bdist.linux-x86_64/wheel/./scitbx/graph copying build/lib/scitbx/graph/rigidity.py -> build/bdist.linux-x86_64/wheel/./scitbx/graph copying build/lib/scitbx/graph/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/graph copying build/lib/scitbx/graph/tst_tardy_tree.py -> build/bdist.linux-x86_64/wheel/./scitbx/graph copying build/lib/scitbx/graph/tardy_tree.py -> build/bdist.linux-x86_64/wheel/./scitbx/graph copying build/lib/scitbx/graph/utils.py -> build/bdist.linux-x86_64/wheel/./scitbx/graph creating build/bdist.linux-x86_64/wheel/scitbx/matrix copying build/lib/scitbx/matrix/row_echelon.py -> build/bdist.linux-x86_64/wheel/./scitbx/matrix creating build/bdist.linux-x86_64/wheel/scitbx/matrix/tests copying build/lib/scitbx/matrix/tests/tst_householder.py -> build/bdist.linux-x86_64/wheel/./scitbx/matrix/tests copying build/lib/scitbx/matrix/tests/tst_row_echelon.py -> build/bdist.linux-x86_64/wheel/./scitbx/matrix/tests copying build/lib/scitbx/matrix/tests/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/matrix/tests copying build/lib/scitbx/matrix/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/matrix copying build/lib/scitbx/fftpack.py -> build/bdist.linux-x86_64/wheel/./scitbx creating build/bdist.linux-x86_64/wheel/scitbx/slatec copying build/lib/scitbx/slatec/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/slatec creating build/bdist.linux-x86_64/wheel/scitbx/linalg copying build/lib/scitbx/linalg/householder.py -> build/bdist.linux-x86_64/wheel/./scitbx/linalg copying build/lib/scitbx/linalg/svd.py -> build/bdist.linux-x86_64/wheel/./scitbx/linalg creating build/bdist.linux-x86_64/wheel/scitbx/linalg/tests copying build/lib/scitbx/linalg/tests/tst_svd.py -> build/bdist.linux-x86_64/wheel/./scitbx/linalg/tests copying build/lib/scitbx/linalg/tests/tst_matrix.py -> build/bdist.linux-x86_64/wheel/./scitbx/linalg/tests copying build/lib/scitbx/linalg/tests/tst_lapack_dsyev.py -> build/bdist.linux-x86_64/wheel/./scitbx/linalg/tests copying build/lib/scitbx/linalg/tests/tst_cholesky.py -> build/bdist.linux-x86_64/wheel/./scitbx/linalg/tests copying build/lib/scitbx/linalg/tests/tst_lapack_svd.py -> build/bdist.linux-x86_64/wheel/./scitbx/linalg/tests copying build/lib/scitbx/linalg/tests/tst_eigensystem.py -> build/bdist.linux-x86_64/wheel/./scitbx/linalg/tests copying build/lib/scitbx/linalg/tests/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/linalg/tests copying build/lib/scitbx/linalg/eigensystem.py -> build/bdist.linux-x86_64/wheel/./scitbx/linalg copying build/lib/scitbx/linalg/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/linalg creating build/bdist.linux-x86_64/wheel/scitbx/linalg/boost_python copying build/lib/scitbx/linalg/boost_python/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/linalg/boost_python copying build/lib/scitbx/linalg/ext.py -> build/bdist.linux-x86_64/wheel/./scitbx/linalg copying build/lib/scitbx/differential_evolution.py -> build/bdist.linux-x86_64/wheel/./scitbx creating build/bdist.linux-x86_64/wheel/scitbx/wigner copying build/lib/scitbx/wigner/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/wigner copying build/lib/scitbx/wigner/tst_wigner3j.py -> build/bdist.linux-x86_64/wheel/./scitbx/wigner copying build/lib/scitbx/direct_search_simulated_annealing.py -> build/bdist.linux-x86_64/wheel/./scitbx copying build/lib/scitbx/regular_grid_on_unit_sphere.py -> build/bdist.linux-x86_64/wheel/./scitbx creating build/bdist.linux-x86_64/wheel/scitbx/dtmin copying build/lib/scitbx/dtmin/reparams.py -> build/bdist.linux-x86_64/wheel/./scitbx/dtmin copying build/lib/scitbx/dtmin/min_logging.py -> build/bdist.linux-x86_64/wheel/./scitbx/dtmin copying build/lib/scitbx/dtmin/refinebase.py -> build/bdist.linux-x86_64/wheel/./scitbx/dtmin copying build/lib/scitbx/dtmin/bounds.py -> build/bdist.linux-x86_64/wheel/./scitbx/dtmin creating build/bdist.linux-x86_64/wheel/scitbx/dtmin/regression copying build/lib/scitbx/dtmin/regression/tst_dtmin_twisted.py -> build/bdist.linux-x86_64/wheel/./scitbx/dtmin/regression copying build/lib/scitbx/dtmin/regression/tst_dtmin_booth.py -> build/bdist.linux-x86_64/wheel/./scitbx/dtmin/regression copying build/lib/scitbx/dtmin/regression/tst_dtmin_basic.py -> build/bdist.linux-x86_64/wheel/./scitbx/dtmin/regression copying build/lib/scitbx/dtmin/regression/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/dtmin/regression copying build/lib/scitbx/dtmin/auxiliary.py -> build/bdist.linux-x86_64/wheel/./scitbx/dtmin copying build/lib/scitbx/dtmin/optional.py -> build/bdist.linux-x86_64/wheel/./scitbx/dtmin copying build/lib/scitbx/dtmin/minimizer.py -> build/bdist.linux-x86_64/wheel/./scitbx/dtmin copying build/lib/scitbx/dtmin/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/dtmin copying build/lib/scitbx/dtmin/compulsory.py -> build/bdist.linux-x86_64/wheel/./scitbx/dtmin copying build/lib/scitbx/dtmin/realsymmetricpseudoinverse.py -> build/bdist.linux-x86_64/wheel/./scitbx/dtmin copying build/lib/scitbx/dtmin/twisted_gaussian.py -> build/bdist.linux-x86_64/wheel/./scitbx/dtmin creating build/bdist.linux-x86_64/wheel/scitbx/serialization copying build/lib/scitbx/serialization/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/serialization creating build/bdist.linux-x86_64/wheel/scitbx/iso_surface copying build/lib/scitbx/iso_surface/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/iso_surface copying build/lib/scitbx/iso_surface/tst_iso_surface.py -> build/bdist.linux-x86_64/wheel/./scitbx/iso_surface copying build/lib/scitbx/cubicle_neighbors.py -> build/bdist.linux-x86_64/wheel/./scitbx copying build/lib/scitbx/smoothing.py -> build/bdist.linux-x86_64/wheel/./scitbx creating build/bdist.linux-x86_64/wheel/scitbx/tests copying build/lib/scitbx/tests/simplex.py -> build/bdist.linux-x86_64/wheel/./scitbx/tests copying build/lib/scitbx/tests/tst_r3_utils.py -> build/bdist.linux-x86_64/wheel/./scitbx/tests copying build/lib/scitbx/tests/tst_basic.py -> build/bdist.linux-x86_64/wheel/./scitbx/tests copying build/lib/scitbx/tests/differential_evolution.py -> build/bdist.linux-x86_64/wheel/./scitbx/tests copying build/lib/scitbx/tests/direct_search_simulated_annealing.py -> build/bdist.linux-x86_64/wheel/./scitbx/tests copying build/lib/scitbx/tests/golden_section_search.py -> build/bdist.linux-x86_64/wheel/./scitbx/tests copying build/lib/scitbx/tests/tst_minimizer_lbfgs_general.py -> build/bdist.linux-x86_64/wheel/./scitbx/tests copying build/lib/scitbx/tests/tst_genetic_algorithm_with_mp.py -> build/bdist.linux-x86_64/wheel/./scitbx/tests copying build/lib/scitbx/tests/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/tests copying build/lib/scitbx/tests/tst_cubicle_neighbors.py -> build/bdist.linux-x86_64/wheel/./scitbx/tests copying build/lib/scitbx/tests/tst_smoothing.py -> build/bdist.linux-x86_64/wheel/./scitbx/tests copying build/lib/scitbx/tests/tst_regular_grid_on_unit_sphere.py -> build/bdist.linux-x86_64/wheel/./scitbx/tests copying build/lib/scitbx/lbfgsb.py -> build/bdist.linux-x86_64/wheel/./scitbx creating build/bdist.linux-x86_64/wheel/scitbx/array_family creating build/bdist.linux-x86_64/wheel/scitbx/array_family/detail copying build/lib/scitbx/array_family/detail/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/array_family/detail copying build/lib/scitbx/array_family/flex.py -> build/bdist.linux-x86_64/wheel/./scitbx/array_family creating build/bdist.linux-x86_64/wheel/scitbx/array_family/accessors copying build/lib/scitbx/array_family/accessors/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/array_family/accessors copying build/lib/scitbx/array_family/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/array_family creating build/bdist.linux-x86_64/wheel/scitbx/array_family/boost_python copying build/lib/scitbx/array_family/boost_python/tst_numpy_bridge.py -> build/bdist.linux-x86_64/wheel/./scitbx/array_family/boost_python copying build/lib/scitbx/array_family/boost_python/tst_shared.py -> build/bdist.linux-x86_64/wheel/./scitbx/array_family/boost_python copying build/lib/scitbx/array_family/boost_python/tst_cost_of_m_handle_in_af_shared.py -> build/bdist.linux-x86_64/wheel/./scitbx/array_family/boost_python copying build/lib/scitbx/array_family/boost_python/tst_flex.py -> build/bdist.linux-x86_64/wheel/./scitbx/array_family/boost_python copying build/lib/scitbx/array_family/boost_python/regression_test.py -> build/bdist.linux-x86_64/wheel/./scitbx/array_family/boost_python copying build/lib/scitbx/array_family/boost_python/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/array_family/boost_python copying build/lib/scitbx/array_family/boost_python/tst_integer_offsets_vs_pointers.py -> build/bdist.linux-x86_64/wheel/./scitbx/array_family/boost_python copying build/lib/scitbx/array_family/boost_python/tst_flex_argument_passing.py -> build/bdist.linux-x86_64/wheel/./scitbx/array_family/boost_python copying build/lib/scitbx/array_family/boost_python/tst_smart_selection.py -> build/bdist.linux-x86_64/wheel/./scitbx/array_family/boost_python copying build/lib/scitbx/array_family/shared.py -> build/bdist.linux-x86_64/wheel/./scitbx/array_family creating build/bdist.linux-x86_64/wheel/scitbx/math copying build/lib/scitbx/math/chebyshev_lsq_fit.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/gaussian_fit.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/distributions.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/tst_undirected_graph.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/curve_fitting.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/incremental_SO3_sampling.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/tst_zernike_mom.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/minimum_covering_ellipsoid.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/tst_multivariate_moments.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/cubic_spline.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/fit_peak.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/tst_zernike.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/clustering.py -> build/bdist.linux-x86_64/wheel/./scitbx/math creating build/bdist.linux-x86_64/wheel/scitbx/math/dev copying build/lib/scitbx/math/dev/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/math/dev copying build/lib/scitbx/math/des_3_100_13.py -> build/bdist.linux-x86_64/wheel/./scitbx/math creating build/bdist.linux-x86_64/wheel/scitbx/math/tests copying build/lib/scitbx/math/tests/tst_fit_peak.py -> build/bdist.linux-x86_64/wheel/./scitbx/math/tests copying build/lib/scitbx/math/tests/tst_line_search.py -> build/bdist.linux-x86_64/wheel/./scitbx/math/tests copying build/lib/scitbx/math/tests/tst_error_propagation_matrix_inverse.py -> build/bdist.linux-x86_64/wheel/./scitbx/math/tests copying build/lib/scitbx/math/tests/tst_tetrahedron.py -> build/bdist.linux-x86_64/wheel/./scitbx/math/tests copying build/lib/scitbx/math/tests/tst_resample.py -> build/bdist.linux-x86_64/wheel/./scitbx/math/tests copying build/lib/scitbx/math/tests/tst_dmatrix.py -> build/bdist.linux-x86_64/wheel/./scitbx/math/tests copying build/lib/scitbx/math/tests/tst_angle_derivative.py -> build/bdist.linux-x86_64/wheel/./scitbx/math/tests copying build/lib/scitbx/math/tests/tst_math.py -> build/bdist.linux-x86_64/wheel/./scitbx/math/tests copying build/lib/scitbx/math/tests/tst_exp_functions.py -> build/bdist.linux-x86_64/wheel/./scitbx/math/tests copying build/lib/scitbx/math/tests/tst_euler_angles.py -> build/bdist.linux-x86_64/wheel/./scitbx/math/tests copying build/lib/scitbx/math/tests/tst_orthonormal_basis.py -> build/bdist.linux-x86_64/wheel/./scitbx/math/tests copying build/lib/scitbx/math/tests/tst_similarity_indices.py -> build/bdist.linux-x86_64/wheel/./scitbx/math/tests copying build/lib/scitbx/math/tests/tst_gcd.py -> build/bdist.linux-x86_64/wheel/./scitbx/math/tests copying build/lib/scitbx/math/tests/tst_g_function.py -> build/bdist.linux-x86_64/wheel/./scitbx/math/tests copying build/lib/scitbx/math/tests/tst_weighted_correlation.py -> build/bdist.linux-x86_64/wheel/./scitbx/math/tests copying build/lib/scitbx/math/tests/tst_gaussian.py -> build/bdist.linux-x86_64/wheel/./scitbx/math/tests copying build/lib/scitbx/math/tests/tst_bessel.py -> build/bdist.linux-x86_64/wheel/./scitbx/math/tests copying build/lib/scitbx/math/tests/tst_uniform_rotation_matrix.py -> build/bdist.linux-x86_64/wheel/./scitbx/math/tests copying build/lib/scitbx/math/tests/tst_halton.py -> build/bdist.linux-x86_64/wheel/./scitbx/math/tests copying build/lib/scitbx/math/tests/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/math/tests copying build/lib/scitbx/math/tests/tst_curve_fitting.py -> build/bdist.linux-x86_64/wheel/./scitbx/math/tests copying build/lib/scitbx/math/tests/tst_gaussian_fit_1d_analytical.py -> build/bdist.linux-x86_64/wheel/./scitbx/math/tests copying build/lib/scitbx/math/tests/tst_clustering.py -> build/bdist.linux-x86_64/wheel/./scitbx/math/tests copying build/lib/scitbx/math/tests/tst_r3_rotation.py -> build/bdist.linux-x86_64/wheel/./scitbx/math/tests copying build/lib/scitbx/math/tests/tst_quadrature.py -> build/bdist.linux-x86_64/wheel/./scitbx/math/tests copying build/lib/scitbx/math/tests/tst_periodogram.py -> build/bdist.linux-x86_64/wheel/./scitbx/math/tests copying build/lib/scitbx/math/tests/tst_minimum_covering_ellipsoid.py -> build/bdist.linux-x86_64/wheel/./scitbx/math/tests copying build/lib/scitbx/math/tests/tst_cubic_equation.py -> build/bdist.linux-x86_64/wheel/./scitbx/math/tests copying build/lib/scitbx/math/tests/tst_fit_quadratic_function.py -> build/bdist.linux-x86_64/wheel/./scitbx/math/tests copying build/lib/scitbx/math/tests/tst_superpose.py -> build/bdist.linux-x86_64/wheel/./scitbx/math/tests copying build/lib/scitbx/math/sphere_sphere_intersection.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/tst_so3_lie_algebra.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/undirected_graph.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/des_3_240_21.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/zernike_align_fft.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/scale_curves.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/tst_2d_zernike.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/so3_lie_algebra.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/sieve_of_eratosthenes.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/spe.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/breakpoint.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/euler_angles.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/fit_quadratic_function.py -> build/bdist.linux-x86_64/wheel/./scitbx/math creating build/bdist.linux-x86_64/wheel/scitbx/math/boost_python copying build/lib/scitbx/math/boost_python/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/math/boost_python copying build/lib/scitbx/math/superpose.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/periodogram.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/fliege_mayer_900.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/multiple_superposition.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/fliege_mayer_400.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/ext.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/tst_bessel_zeros.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/gumbel.py -> build/bdist.linux-x86_64/wheel/./scitbx/math creating build/bdist.linux-x86_64/wheel/scitbx/math/erf copying build/lib/scitbx/math/erf/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/math/erf copying build/lib/scitbx/math/besselk.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/gaussian.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/lefebvre.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/fliege_mayer_900_ylm.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/farey.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/golden_section_search.py -> build/bdist.linux-x86_64/wheel/./scitbx creating build/bdist.linux-x86_64/wheel/scitbx/sparse creating build/bdist.linux-x86_64/wheel/scitbx/sparse/tests copying build/lib/scitbx/sparse/tests/tst_sparse.py -> build/bdist.linux-x86_64/wheel/./scitbx/sparse/tests copying build/lib/scitbx/sparse/tests/tst_lu_factorization.py -> build/bdist.linux-x86_64/wheel/./scitbx/sparse/tests copying build/lib/scitbx/sparse/tests/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/sparse/tests copying build/lib/scitbx/sparse/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/sparse creating build/bdist.linux-x86_64/wheel/scitbx/sparse/boost_python copying build/lib/scitbx/sparse/boost_python/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/sparse/boost_python copying build/lib/scitbx/genetic_algorithm_with_mp.py -> build/bdist.linux-x86_64/wheel/./scitbx creating build/bdist.linux-x86_64/wheel/scitbx/glmtbx creating build/bdist.linux-x86_64/wheel/scitbx/glmtbx/tests copying build/lib/scitbx/glmtbx/tests/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/glmtbx/tests copying build/lib/scitbx/glmtbx/tests/tst.py -> build/bdist.linux-x86_64/wheel/./scitbx/glmtbx/tests copying build/lib/scitbx/glmtbx/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/glmtbx creating build/bdist.linux-x86_64/wheel/scitbx/glmtbx/boost_python copying build/lib/scitbx/glmtbx/boost_python/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/glmtbx/boost_python creating build/bdist.linux-x86_64/wheel/scitbx/source_generators copying build/lib/scitbx/source_generators/lbfgs_fem.py -> build/bdist.linux-x86_64/wheel/./scitbx/source_generators creating build/bdist.linux-x86_64/wheel/scitbx/source_generators/array_family copying build/lib/scitbx/source_generators/array_family/generate_reductions.py -> build/bdist.linux-x86_64/wheel/./scitbx/source_generators/array_family copying build/lib/scitbx/source_generators/array_family/generate_std_imports.py -> build/bdist.linux-x86_64/wheel/./scitbx/source_generators/array_family copying build/lib/scitbx/source_generators/array_family/generate_algebras.py -> build/bdist.linux-x86_64/wheel/./scitbx/source_generators/array_family copying build/lib/scitbx/source_generators/array_family/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/source_generators/array_family copying build/lib/scitbx/source_generators/array_family/generate_operator_traits_builtin.py -> build/bdist.linux-x86_64/wheel/./scitbx/source_generators/array_family copying build/lib/scitbx/source_generators/array_family/generate_operator_functors.py -> build/bdist.linux-x86_64/wheel/./scitbx/source_generators/array_family copying build/lib/scitbx/source_generators/array_family/operator_functor_info.py -> build/bdist.linux-x86_64/wheel/./scitbx/source_generators/array_family copying build/lib/scitbx/source_generators/array_family/generate_all.py -> build/bdist.linux-x86_64/wheel/./scitbx/source_generators/array_family copying build/lib/scitbx/source_generators/array_family/generate_apply.py -> build/bdist.linux-x86_64/wheel/./scitbx/source_generators/array_family copying build/lib/scitbx/source_generators/flex_fwd_h.py -> build/bdist.linux-x86_64/wheel/./scitbx/source_generators copying build/lib/scitbx/source_generators/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/source_generators copying build/lib/scitbx/source_generators/utils.py -> build/bdist.linux-x86_64/wheel/./scitbx/source_generators copying build/lib/scitbx/minpack.py -> build/bdist.linux-x86_64/wheel/./scitbx creating build/bdist.linux-x86_64/wheel/scitbx/lstbx copying build/lib/scitbx/lstbx/normal_eqns_solving.py -> build/bdist.linux-x86_64/wheel/./scitbx/lstbx creating build/bdist.linux-x86_64/wheel/scitbx/lstbx/tests copying build/lib/scitbx/lstbx/tests/tst_normal_equations.py -> build/bdist.linux-x86_64/wheel/./scitbx/lstbx/tests copying build/lib/scitbx/lstbx/tests/test_problems.py -> build/bdist.linux-x86_64/wheel/./scitbx/lstbx/tests copying build/lib/scitbx/lstbx/tests/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/lstbx/tests creating build/bdist.linux-x86_64/wheel/scitbx/lstbx/benchmarks copying build/lib/scitbx/lstbx/benchmarks/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/lstbx/benchmarks copying build/lib/scitbx/lstbx/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/lstbx creating build/bdist.linux-x86_64/wheel/scitbx/lstbx/boost_python copying build/lib/scitbx/lstbx/boost_python/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/lstbx/boost_python copying build/lib/scitbx/lstbx/normal_eqns.py -> build/bdist.linux-x86_64/wheel/./scitbx/lstbx creating build/bdist.linux-x86_64/wheel/scitbx/line_search copying build/lib/scitbx/line_search/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/line_search creating build/bdist.linux-x86_64/wheel/scitbx/rigid_body copying build/lib/scitbx/rigid_body/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/rigid_body creating build/bdist.linux-x86_64/wheel/scitbx/rigid_body/proto copying build/lib/scitbx/rigid_body/proto/tst_featherstone.py -> build/bdist.linux-x86_64/wheel/./scitbx/rigid_body/proto copying build/lib/scitbx/rigid_body/proto/test_utils.py -> build/bdist.linux-x86_64/wheel/./scitbx/rigid_body/proto copying build/lib/scitbx/rigid_body/proto/tst_joint_lib.py -> build/bdist.linux-x86_64/wheel/./scitbx/rigid_body/proto copying build/lib/scitbx/rigid_body/proto/wx_free_motion.py -> build/bdist.linux-x86_64/wheel/./scitbx/rigid_body/proto copying build/lib/scitbx/rigid_body/proto/tst_free_motion.py -> build/bdist.linux-x86_64/wheel/./scitbx/rigid_body/proto copying build/lib/scitbx/rigid_body/proto/free_motion_reference_impl.py -> build/bdist.linux-x86_64/wheel/./scitbx/rigid_body/proto copying build/lib/scitbx/rigid_body/proto/joint_lib.py -> build/bdist.linux-x86_64/wheel/./scitbx/rigid_body/proto copying build/lib/scitbx/rigid_body/proto/tst_free_motion_hard.py -> build/bdist.linux-x86_64/wheel/./scitbx/rigid_body/proto copying build/lib/scitbx/rigid_body/proto/wx_joint_lib.py -> build/bdist.linux-x86_64/wheel/./scitbx/rigid_body/proto copying build/lib/scitbx/rigid_body/proto/tst_molecules.py -> build/bdist.linux-x86_64/wheel/./scitbx/rigid_body/proto copying build/lib/scitbx/rigid_body/proto/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/rigid_body/proto copying build/lib/scitbx/rigid_body/proto/featherstone.py -> build/bdist.linux-x86_64/wheel/./scitbx/rigid_body/proto copying build/lib/scitbx/rigid_body/proto/wx_molecules.py -> build/bdist.linux-x86_64/wheel/./scitbx/rigid_body/proto copying build/lib/scitbx/rigid_body/proto/tst_spherical_refinement.py -> build/bdist.linux-x86_64/wheel/./scitbx/rigid_body/proto copying build/lib/scitbx/rigid_body/proto/tst_singular.py -> build/bdist.linux-x86_64/wheel/./scitbx/rigid_body/proto copying build/lib/scitbx/rigid_body/proto/test_simulation.py -> build/bdist.linux-x86_64/wheel/./scitbx/rigid_body/proto copying build/lib/scitbx/rigid_body/proto/utils.py -> build/bdist.linux-x86_64/wheel/./scitbx/rigid_body/proto copying build/lib/scitbx/rigid_body/tst.py -> build/bdist.linux-x86_64/wheel/./scitbx/rigid_body creating build/bdist.linux-x86_64/wheel/scitbx/rigid_body/essence copying build/lib/scitbx/rigid_body/essence/tst_basic.py -> build/bdist.linux-x86_64/wheel/./scitbx/rigid_body/essence copying build/lib/scitbx/rigid_body/essence/tst_tardy.py -> build/bdist.linux-x86_64/wheel/./scitbx/rigid_body/essence copying build/lib/scitbx/rigid_body/essence/spatial_lib.py -> build/bdist.linux-x86_64/wheel/./scitbx/rigid_body/essence copying build/lib/scitbx/rigid_body/essence/joint_lib.py -> build/bdist.linux-x86_64/wheel/./scitbx/rigid_body/essence copying build/lib/scitbx/rigid_body/essence/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/rigid_body/essence copying build/lib/scitbx/rigid_body/essence/featherstone.py -> build/bdist.linux-x86_64/wheel/./scitbx/rigid_body/essence copying build/lib/scitbx/rigid_body/essence/body_lib.py -> build/bdist.linux-x86_64/wheel/./scitbx/rigid_body/essence copying build/lib/scitbx/rigid_body/essence/make_bundles.py -> build/bdist.linux-x86_64/wheel/./scitbx/rigid_body/essence copying build/lib/scitbx/rigid_body/essence/tst_energy_plots.py -> build/bdist.linux-x86_64/wheel/./scitbx/rigid_body/essence copying build/lib/scitbx/rigid_body/essence/wx_tardy.py -> build/bdist.linux-x86_64/wheel/./scitbx/rigid_body/essence copying build/lib/scitbx/rigid_body/essence/tardy.py -> build/bdist.linux-x86_64/wheel/./scitbx/rigid_body/essence copying build/lib/scitbx/cross_entropy.py -> build/bdist.linux-x86_64/wheel/./scitbx copying build/lib/scitbx/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx creating build/bdist.linux-x86_64/wheel/scitbx/misc copying build/lib/scitbx/misc/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/misc creating build/bdist.linux-x86_64/wheel/scitbx/boost_python copying build/lib/scitbx/boost_python/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/boost_python copying build/lib/scitbx/run_tests.py -> build/bdist.linux-x86_64/wheel/./scitbx creating build/bdist.linux-x86_64/wheel/scitbx/error copying build/lib/scitbx/error/tst_error.py -> build/bdist.linux-x86_64/wheel/./scitbx/error copying build/lib/scitbx/error/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/error copying build/lib/scitbx/libtbx_refresh.py -> build/bdist.linux-x86_64/wheel/./scitbx creating build/bdist.linux-x86_64/wheel/scitbx/python_utils copying build/lib/scitbx/python_utils/graph_tools.py -> build/bdist.linux-x86_64/wheel/./scitbx/python_utils copying build/lib/scitbx/python_utils/random_transform.py -> build/bdist.linux-x86_64/wheel/./scitbx/python_utils copying build/lib/scitbx/python_utils/tst_random_transform.py -> build/bdist.linux-x86_64/wheel/./scitbx/python_utils copying build/lib/scitbx/python_utils/tst_robust.py -> build/bdist.linux-x86_64/wheel/./scitbx/python_utils copying build/lib/scitbx/python_utils/dicts.py -> build/bdist.linux-x86_64/wheel/./scitbx/python_utils copying build/lib/scitbx/python_utils/robust_statistics.py -> build/bdist.linux-x86_64/wheel/./scitbx/python_utils copying build/lib/scitbx/python_utils/tst_graph.py -> build/bdist.linux-x86_64/wheel/./scitbx/python_utils copying build/lib/scitbx/python_utils/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/python_utils copying build/lib/scitbx/python_utils/signal_utils.py -> build/bdist.linux-x86_64/wheel/./scitbx/python_utils copying build/lib/scitbx/python_utils/command_line.py -> build/bdist.linux-x86_64/wheel/./scitbx/python_utils copying build/lib/scitbx/python_utils/misc.py -> build/bdist.linux-x86_64/wheel/./scitbx/python_utils creating build/bdist.linux-x86_64/wheel/scitbx/random creating build/bdist.linux-x86_64/wheel/scitbx/random/tests copying build/lib/scitbx/random/tests/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/random/tests copying build/lib/scitbx/random/tests/tst_random.py -> build/bdist.linux-x86_64/wheel/./scitbx/random/tests copying build/lib/scitbx/random/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/random creating build/bdist.linux-x86_64/wheel/scitbx/random/boost_python copying build/lib/scitbx/random/boost_python/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/random/boost_python copying build/lib/scitbx/r3_utils.py -> build/bdist.linux-x86_64/wheel/./scitbx creating build/bdist.linux-x86_64/wheel/scitbx/graphics_utils copying build/lib/scitbx/graphics_utils/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/graphics_utils copying build/lib/scitbx/graphics_utils/tst.py -> build/bdist.linux-x86_64/wheel/./scitbx/graphics_utils copying build/lib/scitbx/restraints.py -> build/bdist.linux-x86_64/wheel/./scitbx creating build/bdist.linux-x86_64/wheel/cctbx creating build/bdist.linux-x86_64/wheel/cctbx/command_line copying build/lib/cctbx/command_line/form_factor_query.py -> build/bdist.linux-x86_64/wheel/./cctbx/command_line copying build/lib/cctbx/command_line/cctbx_test_nightly.py -> build/bdist.linux-x86_64/wheel/./cctbx/command_line copying build/lib/cctbx/command_line/cod_select_and_pickle.py -> build/bdist.linux-x86_64/wheel/./cctbx/command_line copying build/lib/cctbx/command_line/samosa_join.py -> build/bdist.linux-x86_64/wheel/./cctbx/command_line copying build/lib/cctbx/command_line/samosa_scale.py -> build/bdist.linux-x86_64/wheel/./cctbx/command_line copying build/lib/cctbx/command_line/euclidean_model_matching.py -> build/bdist.linux-x86_64/wheel/./cctbx/command_line copying build/lib/cctbx/command_line/eltbx.show_fp_fdp.py -> build/bdist.linux-x86_64/wheel/./cctbx/command_line copying build/lib/cctbx/command_line/diffuse.py -> build/bdist.linux-x86_64/wheel/./cctbx/command_line copying build/lib/cctbx/command_line/brehm_diederichs.py -> build/bdist.linux-x86_64/wheel/./cctbx/command_line copying build/lib/cctbx/command_line/precession_view.py -> build/bdist.linux-x86_64/wheel/./cctbx/command_line copying build/lib/cctbx/command_line/space_group_info.py -> build/bdist.linux-x86_64/wheel/./cctbx/command_line copying build/lib/cctbx/command_line/qscore.py -> build/bdist.linux-x86_64/wheel/./cctbx/command_line copying build/lib/cctbx/command_line/segment_and_split_map.py -> build/bdist.linux-x86_64/wheel/./cctbx/command_line copying build/lib/cctbx/command_line/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/command_line copying build/lib/cctbx/command_line/auto_sharpen.py -> build/bdist.linux-x86_64/wheel/./cctbx/command_line copying build/lib/cctbx/command_line/subgroups.py -> build/bdist.linux-x86_64/wheel/./cctbx/command_line copying build/lib/cctbx/command_line/find_reticular_twin_laws.py -> build/bdist.linux-x86_64/wheel/./cctbx/command_line copying build/lib/cctbx/command_line/structure_factor_timings.py -> build/bdist.linux-x86_64/wheel/./cctbx/command_line copying build/lib/cctbx/command_line/wavelength_units.py -> build/bdist.linux-x86_64/wheel/./cctbx/command_line copying build/lib/cctbx/command_line/version.py -> build/bdist.linux-x86_64/wheel/./cctbx/command_line creating build/bdist.linux-x86_64/wheel/cctbx/adp_restraints copying build/lib/cctbx/adp_restraints/energies.py -> build/bdist.linux-x86_64/wheel/./cctbx/adp_restraints copying build/lib/cctbx/adp_restraints/flags.py -> build/bdist.linux-x86_64/wheel/./cctbx/adp_restraints copying build/lib/cctbx/adp_restraints/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/adp_restraints copying build/lib/cctbx/adp_restraints/tst_ext.py -> build/bdist.linux-x86_64/wheel/./cctbx/adp_restraints creating build/bdist.linux-x86_64/wheel/cctbx/examples copying build/lib/cctbx/examples/site_symmetry_table.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/tst_structure_factor_derivatives_4.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/phase_o_phrenia.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/unit_cell_minimizers.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples creating build/bdist.linux-x86_64/wheel/cctbx/examples/structure_factor_calculus copying build/lib/cctbx/examples/structure_factor_calculus/site_derivatives.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples/structure_factor_calculus copying build/lib/cctbx/examples/structure_factor_calculus/sites_derivatives.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples/structure_factor_calculus copying build/lib/cctbx/examples/structure_factor_calculus/u_star_derivatives.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples/structure_factor_calculus copying build/lib/cctbx/examples/structure_factor_calculus/sites_least_squares_derivatives.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples/structure_factor_calculus copying build/lib/cctbx/examples/structure_factor_calculus/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples/structure_factor_calculus copying build/lib/cctbx/examples/lebedev_2005_perturbation.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/miller_transform.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/tst_structure_factor_derivatives_2.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/hirshfeld_test.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/g_exp_i_partial_derivatives.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/structure_factor_derivatives_4.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/structure_factor_derivatives_2.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/symops_530.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/exp_i_alpha_derivatives.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/analyze_adp.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/space_group_matrices.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/list_non_principal_continuous_shifts.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/structure_factor_derivatives_3.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/le_page_1982_vs_lebedev_2005.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/sub_group_graph.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/getting_started.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/cr2o3_consistency_checks.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/convert_ccp4_symop_lib.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/fft_map_electron_density_around_atom.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/find_distances_using_cpp_objects.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/space_subgroups.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/reduced_cell_two_folds.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/tst_structure_factor_derivatives.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/location_part.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/random_puckers.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/tst_exp_i_alpha_derivatives.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/find_sys_abs_equiv_space_groups.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/g_exp_i_alpha_derivatives.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/unit_cell_refinement.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/neutron_structure_factors.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/trigonal_r_vs_tetragonal_i.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/tst_space_subgroups.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/tst_g_exp_i_alpha_derivatives.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples creating build/bdist.linux-x86_64/wheel/cctbx/examples/merging copying build/lib/cctbx/examples/merging/data_utilities.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples/merging copying build/lib/cctbx/examples/merging/show_results.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples/merging creating build/bdist.linux-x86_64/wheel/cctbx/examples/merging/samosa copying build/lib/cctbx/examples/merging/samosa/scale.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples/merging/samosa copying build/lib/cctbx/examples/merging/samosa/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples/merging/samosa copying build/lib/cctbx/examples/merging/samosa/per_lattice_postrefinement.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples/merging/samosa copying build/lib/cctbx/examples/merging/samosa/join.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples/merging/samosa copying build/lib/cctbx/examples/merging/sigma_correction.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples/merging copying build/lib/cctbx/examples/merging/test_cc_half.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples/merging copying build/lib/cctbx/examples/merging/data_subset.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples/merging copying build/lib/cctbx/examples/merging/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples/merging copying build/lib/cctbx/examples/merging/tst_permutations.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples/merging copying build/lib/cctbx/examples/merging/test_levenberg_sparse.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples/merging copying build/lib/cctbx/examples/merging/task4.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples/merging copying build/lib/cctbx/examples/merging/test1.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples/merging copying build/lib/cctbx/examples/maximum_subgroups.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/miller_common_sets.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/structure_factor_derivatives.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/f_model_example.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/adp_symmetry_constraints.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/map_skewness.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/change_hand_p31.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/quartz_structure.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/site_symmetry_constraints.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/cr2o3_primitive_cell.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/tst_structure_factor_derivatives_3.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/steve_collins.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/all_axes.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/ccp4_map.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/tst_phase_o_phrenia.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/random_f_calc.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/view_fft_map.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/run_examples.py -> build/bdist.linux-x86_64/wheel/./cctbx creating build/bdist.linux-x86_64/wheel/cctbx/development copying build/lib/cctbx/development/github.py -> build/bdist.linux-x86_64/wheel/./cctbx/development copying build/lib/cctbx/development/fmt_utils.py -> build/bdist.linux-x86_64/wheel/./cctbx/development copying build/lib/cctbx/development/create_models_or_maps.py -> build/bdist.linux-x86_64/wheel/./cctbx/development copying build/lib/cctbx/development/cns_density_modification.py -> build/bdist.linux-x86_64/wheel/./cctbx/development copying build/lib/cctbx/development/direct_or_fft.py -> build/bdist.linux-x86_64/wheel/./cctbx/development copying build/lib/cctbx/development/space_group_option_parser.py -> build/bdist.linux-x86_64/wheel/./cctbx/development copying build/lib/cctbx/development/electron_density_sampling.py -> build/bdist.linux-x86_64/wheel/./cctbx/development copying build/lib/cctbx/development/run_shelx.py -> build/bdist.linux-x86_64/wheel/./cctbx/development copying build/lib/cctbx/development/approx_amplitude_vs_resolution.py -> build/bdist.linux-x86_64/wheel/./cctbx/development copying build/lib/cctbx/development/random_structure.py -> build/bdist.linux-x86_64/wheel/./cctbx/development copying build/lib/cctbx/development/tst_cns_epsilon.py -> build/bdist.linux-x86_64/wheel/./cctbx/development copying build/lib/cctbx/development/tst_cns_hl.py -> build/bdist.linux-x86_64/wheel/./cctbx/development copying build/lib/cctbx/development/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/development copying build/lib/cctbx/development/make_cns_input.py -> build/bdist.linux-x86_64/wheel/./cctbx/development copying build/lib/cctbx/development/make_settings.py -> build/bdist.linux-x86_64/wheel/./cctbx/development copying build/lib/cctbx/development/structure_factor_utils.py -> build/bdist.linux-x86_64/wheel/./cctbx/development copying build/lib/cctbx/development/run_shelx76.py -> build/bdist.linux-x86_64/wheel/./cctbx/development copying build/lib/cctbx/development/debug_utils.py -> build/bdist.linux-x86_64/wheel/./cctbx/development copying build/lib/cctbx/anharmonic.py -> build/bdist.linux-x86_64/wheel/./cctbx copying build/lib/cctbx/french_wilson.py -> build/bdist.linux-x86_64/wheel/./cctbx creating build/bdist.linux-x86_64/wheel/cctbx/masks copying build/lib/cctbx/masks/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/masks copying build/lib/cctbx/math_module.py -> build/bdist.linux-x86_64/wheel/./cctbx copying build/lib/cctbx/multipolar.py -> build/bdist.linux-x86_64/wheel/./cctbx copying build/lib/cctbx/euclidean_model_matching.py -> build/bdist.linux-x86_64/wheel/./cctbx creating build/bdist.linux-x86_64/wheel/cctbx/geometry copying build/lib/cctbx/geometry/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/geometry creating build/bdist.linux-x86_64/wheel/cctbx/array_family copying build/lib/cctbx/array_family/flex.py -> build/bdist.linux-x86_64/wheel/./cctbx/array_family copying build/lib/cctbx/array_family/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/array_family creating build/bdist.linux-x86_64/wheel/cctbx/covariance copying build/lib/cctbx/covariance/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/covariance creating build/bdist.linux-x86_64/wheel/cctbx/crystal copying build/lib/cctbx/crystal/find_best_cell.py -> build/bdist.linux-x86_64/wheel/./cctbx/crystal copying build/lib/cctbx/crystal/super_cell.py -> build/bdist.linux-x86_64/wheel/./cctbx/crystal copying build/lib/cctbx/crystal/tst_distance_based_connectivity.py -> build/bdist.linux-x86_64/wheel/./cctbx/crystal copying build/lib/cctbx/crystal/tst_super_cell.py -> build/bdist.linux-x86_64/wheel/./cctbx/crystal copying build/lib/cctbx/crystal/direct_space_asu.py -> build/bdist.linux-x86_64/wheel/./cctbx/crystal copying build/lib/cctbx/crystal/reindex.py -> build/bdist.linux-x86_64/wheel/./cctbx/crystal copying build/lib/cctbx/crystal/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/crystal copying build/lib/cctbx/crystal/coordination_sequences.py -> build/bdist.linux-x86_64/wheel/./cctbx/crystal copying build/lib/cctbx/crystal/burzlaff_zimmermann_dewolff.py -> build/bdist.linux-x86_64/wheel/./cctbx/crystal copying build/lib/cctbx/crystal/distance_based_connectivity.py -> build/bdist.linux-x86_64/wheel/./cctbx/crystal copying build/lib/cctbx/crystal/close_packing.py -> build/bdist.linux-x86_64/wheel/./cctbx/crystal copying build/lib/cctbx/crystal/tst_ext.py -> build/bdist.linux-x86_64/wheel/./cctbx/crystal creating build/bdist.linux-x86_64/wheel/cctbx/source_generators copying build/lib/cctbx/source_generators/flex_fwd_h.py -> build/bdist.linux-x86_64/wheel/./cctbx/source_generators copying build/lib/cctbx/source_generators/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/source_generators creating build/bdist.linux-x86_64/wheel/cctbx/source_generators/eltbx copying build/lib/cctbx/source_generators/eltbx/generate_henke_cpp.py -> build/bdist.linux-x86_64/wheel/./cctbx/source_generators/eltbx copying build/lib/cctbx/source_generators/eltbx/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/source_generators/eltbx copying build/lib/cctbx/source_generators/eltbx/generate_sasaki_cpp.py -> build/bdist.linux-x86_64/wheel/./cctbx/source_generators/eltbx creating build/bdist.linux-x86_64/wheel/cctbx/regression copying build/lib/cctbx/regression/tst_mem_2.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_maptbx_box.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_refine_xray_curvs.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_sgtbx_special_op_simplifier.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_reflection_statistics.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_french_wilson.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_miller_statistics.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_triplet_generator.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_sgtbx.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_show_cosets.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_fast_nv1995.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_xray_minimization.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_sgtbx_lattice_symmetry.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_sgtbx_subgroups.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_maptbx_structure_factors.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_loc_res.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_weighting_schemes.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_sampled_model_density.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_wavelength_units.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_r_free_utils.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_miller_merge_equivalents.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_geometry_restraints.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_create_models_or_maps.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_crystal.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_coordination_sequences.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_change_basis.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_amplitude_normalisation.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_mem.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_miller.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_itvb_2001_table_a1427_hall_symbols.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_twin_target.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_geometry_restraints_2.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_crystal_asu_clusters.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_miller_data_manipulation.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_grm_modifications.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_grouped_data.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_f_model.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_adp_aniso_restraints.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_krivy_gruber.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_wilson_plot.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_xray_fast_gradients.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_pair_asu_table.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_space_group_type_tidy_cb_op_t.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_xray_minimization_failure.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_diffuse.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_statistics_graphs.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_crystal_close_packing.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_geometry_restraints_lbfgs.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_map_weights_for_symmetry_summation.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_adp_constraints.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_direct_scaling.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_adp_constraints_cartesian.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_fourier_transform_real_part_at_x.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_map_is_periodic.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_reciprocal_space_asu.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_pointgroup_tools.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_sphericity.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_grm_pickling.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_xray_derivatives.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_grm_modifications_rm.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_miller_fft_map.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_find_best_cell.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_sf_low_res_accuracy.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_sgtbx_harker.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_miller_double_step_filtration.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_connectivity.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_maptbx_mask.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_emma.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_sgtbx_site_constraints.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_expand_to_p1.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_niggli_reduction_cpp.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_sgtbx_tidy_pickling.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_web_change_basis.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_fcalc_fft_stability.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_prepare_map_for_docking.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_connectivity_allsym.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_sgtbx_denominators.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_miller_lookup_utils.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_direct_space_asu.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_math_module.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_xray_target_functors.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_xray.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression creating build/bdist.linux-x86_64/wheel/cctbx/geometry_restraints copying build/lib/cctbx/geometry_restraints/base_geometry.py -> build/bdist.linux-x86_64/wheel/./cctbx/geometry_restraints copying build/lib/cctbx/geometry_restraints/tst_process_nonbonded_proxies.py -> build/bdist.linux-x86_64/wheel/./cctbx/geometry_restraints copying build/lib/cctbx/geometry_restraints/process_nonbonded_proxies.py -> build/bdist.linux-x86_64/wheel/./cctbx/geometry_restraints copying build/lib/cctbx/geometry_restraints/energies.py -> build/bdist.linux-x86_64/wheel/./cctbx/geometry_restraints copying build/lib/cctbx/geometry_restraints/tst_motif.py -> build/bdist.linux-x86_64/wheel/./cctbx/geometry_restraints copying build/lib/cctbx/geometry_restraints/manager.py -> build/bdist.linux-x86_64/wheel/./cctbx/geometry_restraints copying build/lib/cctbx/geometry_restraints/standard_cif_links.py -> build/bdist.linux-x86_64/wheel/./cctbx/geometry_restraints copying build/lib/cctbx/geometry_restraints/lbfgs.py -> build/bdist.linux-x86_64/wheel/./cctbx/geometry_restraints copying build/lib/cctbx/geometry_restraints/linking_class.py -> build/bdist.linux-x86_64/wheel/./cctbx/geometry_restraints copying build/lib/cctbx/geometry_restraints/flags.py -> build/bdist.linux-x86_64/wheel/./cctbx/geometry_restraints copying build/lib/cctbx/geometry_restraints/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/geometry_restraints copying build/lib/cctbx/geometry_restraints/tst_angle_derivs.py -> build/bdist.linux-x86_64/wheel/./cctbx/geometry_restraints copying build/lib/cctbx/geometry_restraints/auto_linking_types.py -> build/bdist.linux-x86_64/wheel/./cctbx/geometry_restraints copying build/lib/cctbx/geometry_restraints/tst_proxy_registry.py -> build/bdist.linux-x86_64/wheel/./cctbx/geometry_restraints copying build/lib/cctbx/geometry_restraints/tst_ext.py -> build/bdist.linux-x86_64/wheel/./cctbx/geometry_restraints copying build/lib/cctbx/geometry_restraints/distance_least_squares.py -> build/bdist.linux-x86_64/wheel/./cctbx/geometry_restraints creating build/bdist.linux-x86_64/wheel/cctbx/omz copying build/lib/cctbx/omz/cod_refine.py -> build/bdist.linux-x86_64/wheel/./cctbx/omz copying build/lib/cctbx/omz/cod_select_and_pickle.py -> build/bdist.linux-x86_64/wheel/./cctbx/omz copying build/lib/cctbx/omz/eval_iso_vs_refined.py -> build/bdist.linux-x86_64/wheel/./cctbx/omz copying build/lib/cctbx/omz/pdb_dev.py -> build/bdist.linux-x86_64/wheel/./cctbx/omz copying build/lib/cctbx/omz/tst_dev.py -> build/bdist.linux-x86_64/wheel/./cctbx/omz copying build/lib/cctbx/omz/bfgs.py -> build/bdist.linux-x86_64/wheel/./cctbx/omz copying build/lib/cctbx/omz/cif_refine.py -> build/bdist.linux-x86_64/wheel/./cctbx/omz copying build/lib/cctbx/omz/dev.py -> build/bdist.linux-x86_64/wheel/./cctbx/omz copying build/lib/cctbx/omz/tst_bfgs.py -> build/bdist.linux-x86_64/wheel/./cctbx/omz copying build/lib/cctbx/omz/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/omz copying build/lib/cctbx/omz/tardy_adaptor.py -> build/bdist.linux-x86_64/wheel/./cctbx/omz copying build/lib/cctbx/crystal_orientation.py -> build/bdist.linux-x86_64/wheel/./cctbx copying build/lib/cctbx/dmtbx.py -> build/bdist.linux-x86_64/wheel/./cctbx creating build/bdist.linux-x86_64/wheel/cctbx/neutron copying build/lib/cctbx/neutron/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/neutron creating build/bdist.linux-x86_64/wheel/cctbx/merging copying build/lib/cctbx/merging/brehm_diederichs.py -> build/bdist.linux-x86_64/wheel/./cctbx/merging copying build/lib/cctbx/merging/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/merging creating build/bdist.linux-x86_64/wheel/cctbx/uctbx copying build/lib/cctbx/uctbx/reduction_base.py -> build/bdist.linux-x86_64/wheel/./cctbx/uctbx copying build/lib/cctbx/uctbx/gruber_1973.py -> build/bdist.linux-x86_64/wheel/./cctbx/uctbx copying build/lib/cctbx/uctbx/gruber_1973_table_1.py -> build/bdist.linux-x86_64/wheel/./cctbx/uctbx copying build/lib/cctbx/uctbx/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/uctbx creating build/bdist.linux-x86_64/wheel/cctbx/uctbx/determine_unit_cell copying build/lib/cctbx/uctbx/determine_unit_cell/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/uctbx/determine_unit_cell copying build/lib/cctbx/uctbx/krivy_gruber_1976.py -> build/bdist.linux-x86_64/wheel/./cctbx/uctbx creating build/bdist.linux-x86_64/wheel/cctbx/miller copying build/lib/cctbx/miller/tst_map_to_asu_isym.py -> build/bdist.linux-x86_64/wheel/./cctbx/miller copying build/lib/cctbx/miller/reindexing.py -> build/bdist.linux-x86_64/wheel/./cctbx/miller copying build/lib/cctbx/miller/display.py -> build/bdist.linux-x86_64/wheel/./cctbx/miller copying build/lib/cctbx/miller/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/miller copying build/lib/cctbx/miller/tst_reindexing.py -> build/bdist.linux-x86_64/wheel/./cctbx/miller creating build/bdist.linux-x86_64/wheel/cctbx/macro_mol copying build/lib/cctbx/macro_mol/rotation_parameters.py -> build/bdist.linux-x86_64/wheel/./cctbx/macro_mol copying build/lib/cctbx/macro_mol/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/macro_mol copying build/lib/cctbx/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx creating build/bdist.linux-x86_64/wheel/cctbx/maptbx copying build/lib/cctbx/maptbx/resolution_from_map_and_model.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx copying build/lib/cctbx/maptbx/tst_mask.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx copying build/lib/cctbx/maptbx/tst_atom_curves.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx copying build/lib/cctbx/maptbx/tst_loft.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx copying build/lib/cctbx/maptbx/tst_atom_radius_as_central_peak_width.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx copying build/lib/cctbx/maptbx/prepare_map_for_docking.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx copying build/lib/cctbx/maptbx/mask.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx copying build/lib/cctbx/maptbx/tst_target_and_gradients.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx copying build/lib/cctbx/maptbx/tst_peak_volume_estimate.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx copying build/lib/cctbx/maptbx/tst_map_peak_3d_as_2d.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx copying build/lib/cctbx/maptbx/minimization.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx copying build/lib/cctbx/maptbx/map_symmetry.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx copying build/lib/cctbx/maptbx/tst_real_space_refinement_simple.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx copying build/lib/cctbx/maptbx/tst_interpolation_2.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx copying build/lib/cctbx/maptbx/mem.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx copying build/lib/cctbx/maptbx/prepare_map_for_refinement.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx copying build/lib/cctbx/maptbx/refine_sharpening.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx copying build/lib/cctbx/maptbx/tst_resolution_from_map_and_model.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx copying build/lib/cctbx/maptbx/qscore.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx copying build/lib/cctbx/maptbx/tst_asymmetric_map.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx copying build/lib/cctbx/maptbx/segment_and_split_map.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx copying build/lib/cctbx/maptbx/tst_ccp.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx copying build/lib/cctbx/maptbx/box.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx copying build/lib/cctbx/maptbx/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx copying build/lib/cctbx/maptbx/auto_sharpen.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx copying build/lib/cctbx/maptbx/tst_bcr.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx copying build/lib/cctbx/maptbx/fsc_curve.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx copying build/lib/cctbx/maptbx/refine_scales_errors.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx copying build/lib/cctbx/maptbx/real_space_refinement_simple.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx creating build/bdist.linux-x86_64/wheel/cctbx/maptbx/bcr copying build/lib/cctbx/maptbx/bcr/bcr.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx/bcr copying build/lib/cctbx/maptbx/bcr/tst_qmap_02.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx/bcr copying build/lib/cctbx/maptbx/bcr/tst_example.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx/bcr copying build/lib/cctbx/maptbx/bcr/tst_vrm2.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx/bcr copying build/lib/cctbx/maptbx/bcr/compute_tables.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx/bcr copying build/lib/cctbx/maptbx/bcr/qmap.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx/bcr copying build/lib/cctbx/maptbx/bcr/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx/bcr copying build/lib/cctbx/maptbx/bcr/tst_two_atoms.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx/bcr copying build/lib/cctbx/maptbx/bcr/tst_vrm.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx/bcr copying build/lib/cctbx/maptbx/bcr/tst_table.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx/bcr copying build/lib/cctbx/maptbx/bcr/tst_adp_refine.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx/bcr copying build/lib/cctbx/maptbx/tst_interpolation.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx copying build/lib/cctbx/maptbx/tst_qscore.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx copying build/lib/cctbx/maptbx/tst_get_percentile_cutoffs.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx copying build/lib/cctbx/run_tests.py -> build/bdist.linux-x86_64/wheel/./cctbx creating build/bdist.linux-x86_64/wheel/cctbx/web copying build/lib/cctbx/web/phase_o_phrenia.py -> build/bdist.linux-x86_64/wheel/./cctbx/web copying build/lib/cctbx/web/change_hand.py -> build/bdist.linux-x86_64/wheel/./cctbx/web copying build/lib/cctbx/web/replay.py -> build/bdist.linux-x86_64/wheel/./cctbx/web copying build/lib/cctbx/web/cgi_utils.py -> build/bdist.linux-x86_64/wheel/./cctbx/web creating build/bdist.linux-x86_64/wheel/cctbx/web/asu_gallery copying build/lib/cctbx/web/asu_gallery/jv_index.py -> build/bdist.linux-x86_64/wheel/./cctbx/web/asu_gallery copying build/lib/cctbx/web/asu_gallery/jv_asu.py -> build/bdist.linux-x86_64/wheel/./cctbx/web/asu_gallery copying build/lib/cctbx/web/asu_gallery/jvx.py -> build/bdist.linux-x86_64/wheel/./cctbx/web/asu_gallery copying build/lib/cctbx/web/asu_gallery/guide_to_notation.py -> build/bdist.linux-x86_64/wheel/./cctbx/web/asu_gallery copying build/lib/cctbx/web/asu_gallery/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/web/asu_gallery copying build/lib/cctbx/web/asu_gallery/web_links.py -> build/bdist.linux-x86_64/wheel/./cctbx/web/asu_gallery copying build/lib/cctbx/web/iotbx_cif_validate.py -> build/bdist.linux-x86_64/wheel/./cctbx/web copying build/lib/cctbx/web/structure_factors_pdb.py -> build/bdist.linux-x86_64/wheel/./cctbx/web copying build/lib/cctbx/web/frac_cart.py -> build/bdist.linux-x86_64/wheel/./cctbx/web copying build/lib/cctbx/web/explore_symmetry.py -> build/bdist.linux-x86_64/wheel/./cctbx/web copying build/lib/cctbx/web/lattice_symmetry.py -> build/bdist.linux-x86_64/wheel/./cctbx/web copying build/lib/cctbx/web/structure_factors.py -> build/bdist.linux-x86_64/wheel/./cctbx/web copying build/lib/cctbx/web/shelx.py -> build/bdist.linux-x86_64/wheel/./cctbx/web copying build/lib/cctbx/web/browse_settings.py -> build/bdist.linux-x86_64/wheel/./cctbx/web copying build/lib/cctbx/web/multiple_cell.py -> build/bdist.linux-x86_64/wheel/./cctbx/web copying build/lib/cctbx/web/change_setting.py -> build/bdist.linux-x86_64/wheel/./cctbx/web copying build/lib/cctbx/web/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/web copying build/lib/cctbx/web/libtbx_help.py -> build/bdist.linux-x86_64/wheel/./cctbx/web copying build/lib/cctbx/web/change_basis.py -> build/bdist.linux-x86_64/wheel/./cctbx/web copying build/lib/cctbx/web/dispatcher.py -> build/bdist.linux-x86_64/wheel/./cctbx/web copying build/lib/cctbx/web/all_axes.py -> build/bdist.linux-x86_64/wheel/./cctbx/web copying build/lib/cctbx/web/emma.py -> build/bdist.linux-x86_64/wheel/./cctbx/web copying build/lib/cctbx/web/wyckoff.py -> build/bdist.linux-x86_64/wheel/./cctbx/web copying build/lib/cctbx/web/io_utils.py -> build/bdist.linux-x86_64/wheel/./cctbx/web creating build/bdist.linux-x86_64/wheel/cctbx/sgtbx copying build/lib/cctbx/sgtbx/plane_groups.py -> build/bdist.linux-x86_64/wheel/./cctbx/sgtbx copying build/lib/cctbx/sgtbx/harker.py -> build/bdist.linux-x86_64/wheel/./cctbx/sgtbx copying build/lib/cctbx/sgtbx/show_cosets.py -> build/bdist.linux-x86_64/wheel/./cctbx/sgtbx copying build/lib/cctbx/sgtbx/lattice_symmetry.py -> build/bdist.linux-x86_64/wheel/./cctbx/sgtbx copying build/lib/cctbx/sgtbx/symbol_confidence.py -> build/bdist.linux-x86_64/wheel/./cctbx/sgtbx copying build/lib/cctbx/sgtbx/reticular_twin_laws.py -> build/bdist.linux-x86_64/wheel/./cctbx/sgtbx copying build/lib/cctbx/sgtbx/sub_lattice_tools.py -> build/bdist.linux-x86_64/wheel/./cctbx/sgtbx copying build/lib/cctbx/sgtbx/sys_abs_equiv.py -> build/bdist.linux-x86_64/wheel/./cctbx/sgtbx copying build/lib/cctbx/sgtbx/bravais_types.py -> build/bdist.linux-x86_64/wheel/./cctbx/sgtbx copying build/lib/cctbx/sgtbx/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/sgtbx copying build/lib/cctbx/sgtbx/literal_description.py -> build/bdist.linux-x86_64/wheel/./cctbx/sgtbx copying build/lib/cctbx/sgtbx/subgroups.py -> build/bdist.linux-x86_64/wheel/./cctbx/sgtbx copying build/lib/cctbx/sgtbx/rational_matrices_point_groups.py -> build/bdist.linux-x86_64/wheel/./cctbx/sgtbx creating build/bdist.linux-x86_64/wheel/cctbx/sgtbx/direct_space_asu copying build/lib/cctbx/sgtbx/direct_space_asu/cut_plane.py -> build/bdist.linux-x86_64/wheel/./cctbx/sgtbx/direct_space_asu copying build/lib/cctbx/sgtbx/direct_space_asu/check_redundancies.py -> build/bdist.linux-x86_64/wheel/./cctbx/sgtbx/direct_space_asu copying build/lib/cctbx/sgtbx/direct_space_asu/facet_analysis.py -> build/bdist.linux-x86_64/wheel/./cctbx/sgtbx/direct_space_asu copying build/lib/cctbx/sgtbx/direct_space_asu/short_cuts.py -> build/bdist.linux-x86_64/wheel/./cctbx/sgtbx/direct_space_asu copying build/lib/cctbx/sgtbx/direct_space_asu/plane_group_reference_table.py -> build/bdist.linux-x86_64/wheel/./cctbx/sgtbx/direct_space_asu copying build/lib/cctbx/sgtbx/direct_space_asu/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/sgtbx/direct_space_asu creating build/bdist.linux-x86_64/wheel/cctbx/sgtbx/direct_space_asu/proto copying build/lib/cctbx/sgtbx/direct_space_asu/proto/tst_asu.py -> build/bdist.linux-x86_64/wheel/./cctbx/sgtbx/direct_space_asu/proto copying build/lib/cctbx/sgtbx/direct_space_asu/proto/generate_cpp_asu_table.py -> build/bdist.linux-x86_64/wheel/./cctbx/sgtbx/direct_space_asu/proto copying build/lib/cctbx/sgtbx/direct_space_asu/proto/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/sgtbx/direct_space_asu/proto copying build/lib/cctbx/sgtbx/direct_space_asu/reference_table.py -> build/bdist.linux-x86_64/wheel/./cctbx/sgtbx/direct_space_asu copying build/lib/cctbx/sgtbx/reticular_pg_tools.py -> build/bdist.linux-x86_64/wheel/./cctbx/sgtbx copying build/lib/cctbx/sgtbx/pointgroup_tools.py -> build/bdist.linux-x86_64/wheel/./cctbx/sgtbx copying build/lib/cctbx/sgtbx/cosets.py -> build/bdist.linux-x86_64/wheel/./cctbx/sgtbx copying build/lib/cctbx/libtbx_refresh.py -> build/bdist.linux-x86_64/wheel/./cctbx creating build/bdist.linux-x86_64/wheel/cctbx/xray creating build/bdist.linux-x86_64/wheel/cctbx/xray/observations copying build/lib/cctbx/xray/observations/tst_observations.py -> build/bdist.linux-x86_64/wheel/./cctbx/xray/observations copying build/lib/cctbx/xray/observations/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/xray/observations copying build/lib/cctbx/xray/minimization.py -> build/bdist.linux-x86_64/wheel/./cctbx/xray copying build/lib/cctbx/xray/weighting_schemes.py -> build/bdist.linux-x86_64/wheel/./cctbx/xray copying build/lib/cctbx/xray/target_functors.py -> build/bdist.linux-x86_64/wheel/./cctbx/xray copying build/lib/cctbx/xray/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/xray copying build/lib/cctbx/xray/observation_types.py -> build/bdist.linux-x86_64/wheel/./cctbx/xray copying build/lib/cctbx/xray/structure.py -> build/bdist.linux-x86_64/wheel/./cctbx/xray creating build/bdist.linux-x86_64/wheel/cctbx/xray/targets copying build/lib/cctbx/xray/targets/tst_shelxl_wght_ls.py -> build/bdist.linux-x86_64/wheel/./cctbx/xray/targets copying build/lib/cctbx/xray/targets/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/xray/targets copying build/lib/cctbx/xray/targets/tst_r1.py -> build/bdist.linux-x86_64/wheel/./cctbx/xray/targets copying build/lib/cctbx/xray/targets/r1.py -> build/bdist.linux-x86_64/wheel/./cctbx/xray/targets copying build/lib/cctbx/xray/ext.py -> build/bdist.linux-x86_64/wheel/./cctbx/xray copying build/lib/cctbx/xray/scatterer.py -> build/bdist.linux-x86_64/wheel/./cctbx/xray creating build/bdist.linux-x86_64/wheel/cctbx/xray/structure_factors copying build/lib/cctbx/xray/structure_factors/algorithm.py -> build/bdist.linux-x86_64/wheel/./cctbx/xray/structure_factors copying build/lib/cctbx/xray/structure_factors/from_scatterers.py -> build/bdist.linux-x86_64/wheel/./cctbx/xray/structure_factors copying build/lib/cctbx/xray/structure_factors/manager.py -> build/bdist.linux-x86_64/wheel/./cctbx/xray/structure_factors copying build/lib/cctbx/xray/structure_factors/gradients_base.py -> build/bdist.linux-x86_64/wheel/./cctbx/xray/structure_factors copying build/lib/cctbx/xray/structure_factors/gradients_fft.py -> build/bdist.linux-x86_64/wheel/./cctbx/xray/structure_factors copying build/lib/cctbx/xray/structure_factors/gradients_direct.py -> build/bdist.linux-x86_64/wheel/./cctbx/xray/structure_factors copying build/lib/cctbx/xray/structure_factors/from_scatterers_direct_parallel.py -> build/bdist.linux-x86_64/wheel/./cctbx/xray/structure_factors copying build/lib/cctbx/xray/structure_factors/from_scatterers_fft.py -> build/bdist.linux-x86_64/wheel/./cctbx/xray/structure_factors copying build/lib/cctbx/xray/structure_factors/gradients.py -> build/bdist.linux-x86_64/wheel/./cctbx/xray/structure_factors copying build/lib/cctbx/xray/structure_factors/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/xray/structure_factors copying build/lib/cctbx/xray/structure_factors/global_counters.py -> build/bdist.linux-x86_64/wheel/./cctbx/xray/structure_factors copying build/lib/cctbx/xray/structure_factors/from_scatterers_direct.py -> build/bdist.linux-x86_64/wheel/./cctbx/xray/structure_factors copying build/lib/cctbx/xray/structure_factors/misc.py -> build/bdist.linux-x86_64/wheel/./cctbx/xray/structure_factors copying build/lib/cctbx/xray/structure_factors/gradient_flags.py -> build/bdist.linux-x86_64/wheel/./cctbx/xray/structure_factors copying build/lib/cctbx/adptbx.py -> build/bdist.linux-x86_64/wheel/./cctbx copying build/lib/cctbx/translation_search.py -> build/bdist.linux-x86_64/wheel/./cctbx copying build/lib/cctbx/r_free_utils.py -> build/bdist.linux-x86_64/wheel/./cctbx copying build/lib/cctbx/statistics.py -> build/bdist.linux-x86_64/wheel/./cctbx copying build/lib/cctbx/symmetry_search.py -> build/bdist.linux-x86_64/wheel/./cctbx creating build/bdist.linux-x86_64/wheel/cctbx/eltbx copying build/lib/cctbx/eltbx/gaussian_fit.py -> build/bdist.linux-x86_64/wheel/./cctbx/eltbx copying build/lib/cctbx/eltbx/neutron.py -> build/bdist.linux-x86_64/wheel/./cctbx/eltbx creating build/bdist.linux-x86_64/wheel/cctbx/eltbx/development copying build/lib/cctbx/eltbx/development/rez_rez_grant.py -> build/bdist.linux-x86_64/wheel/./cctbx/eltbx/development copying build/lib/cctbx/eltbx/development/kissel_io.py -> build/bdist.linux-x86_64/wheel/./cctbx/eltbx/development copying build/lib/cctbx/eltbx/development/kissel_fits.py -> build/bdist.linux-x86_64/wheel/./cctbx/eltbx/development copying build/lib/cctbx/eltbx/development/itvc_fits.py -> build/bdist.linux-x86_64/wheel/./cctbx/eltbx/development copying build/lib/cctbx/eltbx/development/create_n_gaussian_raw_cpp.py -> build/bdist.linux-x86_64/wheel/./cctbx/eltbx/development copying build/lib/cctbx/eltbx/development/combine_fits.py -> build/bdist.linux-x86_64/wheel/./cctbx/eltbx/development copying build/lib/cctbx/eltbx/development/format_gaussian_fits.py -> build/bdist.linux-x86_64/wheel/./cctbx/eltbx/development copying build/lib/cctbx/eltbx/development/itvc_section61_io.py -> build/bdist.linux-x86_64/wheel/./cctbx/eltbx/development copying build/lib/cctbx/eltbx/development/itvc_approx.py -> build/bdist.linux-x86_64/wheel/./cctbx/eltbx/development copying build/lib/cctbx/eltbx/development/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/eltbx/development copying build/lib/cctbx/eltbx/development/e_scattering_plots.py -> build/bdist.linux-x86_64/wheel/./cctbx/eltbx/development copying build/lib/cctbx/eltbx/development/itvc_kissel.py -> build/bdist.linux-x86_64/wheel/./cctbx/eltbx/development copying build/lib/cctbx/eltbx/development/itvc_cross_validation.py -> build/bdist.linux-x86_64/wheel/./cctbx/eltbx/development copying build/lib/cctbx/eltbx/development/hydrogen_plots.py -> build/bdist.linux-x86_64/wheel/./cctbx/eltbx/development copying build/lib/cctbx/eltbx/covalent_radii.py -> build/bdist.linux-x86_64/wheel/./cctbx/eltbx copying build/lib/cctbx/eltbx/formula.py -> build/bdist.linux-x86_64/wheel/./cctbx/eltbx copying build/lib/cctbx/eltbx/icsd_radii.py -> build/bdist.linux-x86_64/wheel/./cctbx/eltbx creating build/bdist.linux-x86_64/wheel/cctbx/eltbx/xray_scattering copying build/lib/cctbx/eltbx/xray_scattering/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/eltbx/xray_scattering copying build/lib/cctbx/eltbx/wavelengths.py -> build/bdist.linux-x86_64/wheel/./cctbx/eltbx copying build/lib/cctbx/eltbx/chemical_elements.py -> build/bdist.linux-x86_64/wheel/./cctbx/eltbx copying build/lib/cctbx/eltbx/attenuation_coefficient.py -> build/bdist.linux-x86_64/wheel/./cctbx/eltbx copying build/lib/cctbx/eltbx/fp_fdp.py -> build/bdist.linux-x86_64/wheel/./cctbx/eltbx copying build/lib/cctbx/eltbx/henke.py -> build/bdist.linux-x86_64/wheel/./cctbx/eltbx copying build/lib/cctbx/eltbx/tiny_pse.py -> build/bdist.linux-x86_64/wheel/./cctbx/eltbx copying build/lib/cctbx/eltbx/e_scattering.py -> build/bdist.linux-x86_64/wheel/./cctbx/eltbx copying build/lib/cctbx/eltbx/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/eltbx copying build/lib/cctbx/eltbx/sasaki.py -> build/bdist.linux-x86_64/wheel/./cctbx/eltbx copying build/lib/cctbx/eltbx/distance_based_connectivity.py -> build/bdist.linux-x86_64/wheel/./cctbx/eltbx copying build/lib/cctbx/eltbx/van_der_waals_radii.py -> build/bdist.linux-x86_64/wheel/./cctbx/eltbx copying build/lib/cctbx/eltbx/read_custom_scattering_dict.py -> build/bdist.linux-x86_64/wheel/./cctbx/eltbx creating build/bdist.linux-x86_64/wheel/cootbx copying build/lib/cootbx/hydrogens_button.py -> build/bdist.linux-x86_64/wheel/./cootbx copying build/lib/cootbx/watch_file.py -> build/bdist.linux-x86_64/wheel/./cootbx copying build/lib/cootbx/simple_zoom_list.py -> build/bdist.linux-x86_64/wheel/./cootbx copying build/lib/cootbx/interactive_edit.py -> build/bdist.linux-x86_64/wheel/./cootbx copying build/lib/cootbx/xmlrpc_server.py -> build/bdist.linux-x86_64/wheel/./cootbx copying build/lib/cootbx/validation_lists.py -> build/bdist.linux-x86_64/wheel/./cootbx copying build/lib/cootbx/__init__.py -> build/bdist.linux-x86_64/wheel/./cootbx copying build/lib/cootbx/ligand_checklist.py -> build/bdist.linux-x86_64/wheel/./cootbx copying build/lib/cootbx/view_refinement.py -> build/bdist.linux-x86_64/wheel/./cootbx creating build/bdist.linux-x86_64/wheel/ccp4io_adaptbx copying build/lib/ccp4io_adaptbx/copy_files.py -> build/bdist.linux-x86_64/wheel/./ccp4io_adaptbx copying build/lib/ccp4io_adaptbx/__init__.py -> build/bdist.linux-x86_64/wheel/./ccp4io_adaptbx copying build/lib/ccp4io_adaptbx/tst.py -> build/bdist.linux-x86_64/wheel/./ccp4io_adaptbx creating build/bdist.linux-x86_64/wheel/libtbx copying build/lib/libtbx/configure.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/cluster.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/find_reference_cycles.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/dlite.py -> build/bdist.linux-x86_64/wheel/./libtbx creating build/bdist.linux-x86_64/wheel/libtbx/command_line copying build/lib/libtbx/command_line/find_untested.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/show_full_command_path.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/printenv.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/show_dist_paths.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/find_reserved_names.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/show_but_no_repr.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/find_in_repositories.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/create_installer.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/assert_stdin.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/clean_clutter.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/create_install_script_bat.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/show_env.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/run_tests_parallel.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/phil.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/resource_monitor_plot.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/assert_stdin_ends_with.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/bootstrap.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/sge_available_slots.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/dtrace.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/wait_for_file.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/remove_unused_imports.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/show_module_dependencies.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/check_libcpp.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/seconds_since_the_epoch.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/show_host_and_user.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/list_modules.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/line_count.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/easy_qsub.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/assert_line_count.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/show_lib_path.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/list_source_files_sorted_by_size.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/assert_stdin_contains_strings.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/add_docstrings_with_ai.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/reindent.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/any2unix.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/show_date_and_time.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/clear_paths.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/find_clutter.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/bundle_as_exe.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/assert_not_show_diff.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/start_binary_bundle.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/find_under_build.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/start_process.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/create_mac_app.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/import_all_python.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/show_number_of_processors.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/remote_processing.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/show_repository_paths.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/show_numeric_version.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/help.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/show_include_paths.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/show_build_path.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/parallel_simple.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/ipython_shell_start.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/find_unused_imports.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/create_windows_exe.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/env_run.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/show_python_dependencies.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/nequal.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/show_commands.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/show_build_options.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/show_all_on_path.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/analyse_code_comments.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/find_pdb_mmcif_problems.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/install.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/show_pythonpath.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/find_old_style_classes.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/sphinx_build.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/show_python_sys_executable.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/epydoc_run.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/__init__.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/show_numpy_version.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/find_unused_imports_crude.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/run_pickled_function.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/scons.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/show_tests.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/show_bin_path.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/raise_exception_for_testing.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/remove_tree.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/py_compile_all.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/show_variable_names.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/find_files.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/create_cctbx_bundle_for_installer.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/show_environ_usage.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/create_unzipsfx.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/make_sphinx_html.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/git_avoid_merges.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/cctbx_chunk.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/create_selfx.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/make_dist.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/extract_code_from_txt.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/install_conda.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/prime_factors_of.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/list_files.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/path_utility.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/import_all_ext.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/sge_qstat_counts.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line creating build/bdist.linux-x86_64/wheel/libtbx/development copying build/lib/libtbx/development/timers.py -> build/bdist.linux-x86_64/wheel/./libtbx/development copying build/lib/libtbx/development/__init__.py -> build/bdist.linux-x86_64/wheel/./libtbx/development copying build/lib/libtbx/development/xcode_build_phase.py -> build/bdist.linux-x86_64/wheel/./libtbx/development copying build/lib/libtbx/development/except_Exception.py -> build/bdist.linux-x86_64/wheel/./libtbx/development copying build/lib/libtbx/tst_version.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/tst_containers.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/citations.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/resource_monitor.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/tst_binary_search.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/smart_open.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/thread_utils.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/easy_run.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/word_index_generator.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/xmlrpc_utils.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/clusterTests.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/code_analysis.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/path.py -> build/bdist.linux-x86_64/wheel/./libtbx creating build/bdist.linux-x86_64/wheel/libtbx/langchain creating build/bdist.linux-x86_64/wheel/libtbx/langchain/knowledge copying build/lib/libtbx/langchain/knowledge/phenix_programs.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/knowledge copying build/lib/libtbx/langchain/knowledge/yaml_loader.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/knowledge copying build/lib/libtbx/langchain/knowledge/summary_display.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/knowledge copying build/lib/libtbx/langchain/knowledge/thinking_prompts.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/knowledge copying build/lib/libtbx/langchain/knowledge/prompts_hybrid.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/knowledge copying build/lib/libtbx/langchain/knowledge/html_report_template.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/knowledge copying build/lib/libtbx/langchain/knowledge/plan_schema.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/knowledge copying build/lib/libtbx/langchain/knowledge/plan_template_loader.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/knowledge copying build/lib/libtbx/langchain/knowledge/metric_patterns.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/knowledge copying build/lib/libtbx/langchain/knowledge/kb_loader.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/knowledge copying build/lib/libtbx/langchain/knowledge/__init__.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/knowledge copying build/lib/libtbx/langchain/knowledge/api_schema.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/knowledge copying build/lib/libtbx/langchain/knowledge/prompts.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/knowledge copying build/lib/libtbx/langchain/knowledge/explanation_prompts.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/knowledge copying build/lib/libtbx/langchain/knowledge/program_registration.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/knowledge creating build/bdist.linux-x86_64/wheel/libtbx/langchain/commands copying build/lib/libtbx/langchain/commands/base.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/commands copying build/lib/libtbx/langchain/commands/__init__.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/commands creating build/bdist.linux-x86_64/wheel/libtbx/langchain/examples copying build/lib/libtbx/langchain/examples/__init__.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/examples copying build/lib/libtbx/langchain/phenix_knowledge.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain copying build/lib/libtbx/langchain/run_inspect_db.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain creating build/bdist.linux-x86_64/wheel/libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/perceive_checks.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/graph_state.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/thinking_agent.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/placement_checker.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/sanity_checker.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/command_postprocessor.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/strategy_memory.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/program_registry.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/session_tools.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/command_builder.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/event_log.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/program_validator.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/advice_preprocessor.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/rules_selector.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/metrics_analyzer.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/directive_validator.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/format_validation.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/api_client.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/gate_evaluator.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/metric_evaluator.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/generate_logic_doc.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/tst_agent_enhancements.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/error_analyzer.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/display_data_model.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/generate_safety_docs.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/file_utils.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/event_formatter.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/planner.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/session.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/error_classifier.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/graph_nodes.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/plan_generator.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/transport.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/dry_run_manager.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/template_builder.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/docs_tools.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/structure_model.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/intent_classifier.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/validation_inspector.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/validation_history.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/directive_extractor.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/config_loader.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/yaml_tools.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/file_metadata.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/kb_tags.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/memory.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/rate_limit_handler.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/__init__.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/workflow_engine.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/failure_diagnoser.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/hypothesis_evaluator.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/phil_validator.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/log_section_extractor.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/phenix_utils.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/graph.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/pattern_manager.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/contract.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/nl_to_phil.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/best_files_tracker.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/utils.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/workflow_state.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent creating build/bdist.linux-x86_64/wheel/libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_api_schema.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/audit_phase_rename.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_stop_reason_prompt.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_workflow_state.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_silent_stop_abort_messages.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_new_programs.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_file_utils.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_advice_preprocessing.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_action_item_1.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_phase8_command_building.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_workflow_complete_stop.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_hardcoded_cleanup.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_langchain_tools.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_structure_model.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_best_files_tracker.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_thinking_defense.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_fix_verification.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_yaml_config.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_backward_compat.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_directive_extractor.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_program_registration.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_audit_fixes.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_history_analysis.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_sanity_checker.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_plan_generator.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_halfmap_sigmaa_inventory.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_utils.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_directive_validator.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_validate_file_overrides.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_phase3_bug5.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_yaml_tools.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_command_builder.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_pattern_manager.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_file_categorization.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_session_directives.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_plan_schema.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_v112_13_fixes.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_mtz_phases_session_blocking.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_phase4_history_flags.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_validation_history.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/test_api_keys.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_phase1_contract_gaps.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_contract_compliance.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_event_system.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_diagnosed_failure_stop.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_phase3_serialization_symmetry.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_copies_tracking.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_dry_run.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_decision_flow.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_log_extractor.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_stop_feedback_api_plan_command.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/run_all_tests.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_n_bugs.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_state_serialization.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_event_formatter_file_categories.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_error_classifier.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_old_client_compat.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_session_summary.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_directives_integration.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_metric_patterns.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_integration.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_phase2_path_consistency.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_error_analyzer.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_explanation_prompts.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_intent_classifier.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/__init__.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_phase7_routing_simulation.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_strategy_memory.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_template.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_summary_display.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_shared_code_imports.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_transport.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_docs_tools.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests creating build/bdist.linux-x86_64/wheel/libtbx/langchain/tests/integration copying build/lib/libtbx/langchain/tests/integration/__init__.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests/integration copying build/lib/libtbx/langchain/tests/tst_autosol_bugs.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_phase6_category_consumer.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_phaser_multimodel.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_phase0_static_audit.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_gate_evaluator.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_hypothesis_evaluator.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_abort_message_all_stops.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_display_data_model.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_session_tools.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_stop_reason_codes.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_phil_validation.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_perceive_stop_checks.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/analyze_tutorial_runs.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_scenario_tracer.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_mtz_crosscheck.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_stop_condition_fix.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_phase9_llm_perturbation.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_thinking_agent.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_fabricated_stop_condition.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_metrics_analyzer.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_phase5_error_classification.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests creating build/bdist.linux-x86_64/wheel/libtbx/langchain/strategies copying build/lib/libtbx/langchain/strategies/base.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/strategies copying build/lib/libtbx/langchain/strategies/__init__.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/strategies creating build/bdist.linux-x86_64/wheel/libtbx/langchain/rag copying build/lib/libtbx/langchain/rag/vector_store.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/rag copying build/lib/libtbx/langchain/rag/retriever.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/rag copying build/lib/libtbx/langchain/rag/__init__.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/rag copying build/lib/libtbx/langchain/rag/document_loader.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/rag copying build/lib/libtbx/langchain/run_query_docs.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain copying build/lib/libtbx/langchain/run_build_db.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain creating build/bdist.linux-x86_64/wheel/libtbx/langchain/analysis copying build/lib/libtbx/langchain/analysis/analyzer.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/analysis copying build/lib/libtbx/langchain/analysis/state_extractor.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/analysis copying build/lib/libtbx/langchain/analysis/log_info.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/analysis copying build/lib/libtbx/langchain/analysis/agent_session_analyzer.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/analysis copying build/lib/libtbx/langchain/analysis/__init__.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/analysis copying build/lib/libtbx/langchain/analysis/summarizer.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/analysis copying build/lib/libtbx/langchain/__init__.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain creating build/bdist.linux-x86_64/wheel/libtbx/langchain/utils copying build/lib/libtbx/langchain/utils/run_utils.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/utils copying build/lib/libtbx/langchain/utils/text_processing.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/utils copying build/lib/libtbx/langchain/utils/query.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/utils copying build/lib/libtbx/langchain/utils/__init__.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/utils creating build/bdist.linux-x86_64/wheel/libtbx/langchain/core copying build/lib/libtbx/langchain/core/types.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/core copying build/lib/libtbx/langchain/core/llm.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/core copying build/lib/libtbx/langchain/core/__init__.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/core creating build/bdist.linux-x86_64/wheel/libtbx/langchain/validation copying build/lib/libtbx/langchain/validation/phenix_refine.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/validation copying build/lib/libtbx/langchain/validation/core_validator.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/validation copying build/lib/libtbx/langchain/validation/registry.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/validation copying build/lib/libtbx/langchain/validation/base.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/validation copying build/lib/libtbx/langchain/validation/__init__.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/validation copying build/lib/libtbx/langchain/validation/mtz_utils.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/validation copying build/lib/libtbx/console_utils.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/cli.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/file_clutter.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/math_utils.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/forward_compatibility.py -> build/bdist.linux-x86_64/wheel/./libtbx creating build/bdist.linux-x86_64/wheel/libtbx/queuing_system_utils copying build/lib/libtbx/queuing_system_utils/remote.py -> build/bdist.linux-x86_64/wheel/./libtbx/queuing_system_utils copying build/lib/libtbx/queuing_system_utils/lsf.py -> build/bdist.linux-x86_64/wheel/./libtbx/queuing_system_utils copying build/lib/libtbx/queuing_system_utils/communication.py -> build/bdist.linux-x86_64/wheel/./libtbx/queuing_system_utils creating build/bdist.linux-x86_64/wheel/libtbx/queuing_system_utils/processing copying build/lib/libtbx/queuing_system_utils/processing/polling.py -> build/bdist.linux-x86_64/wheel/./libtbx/queuing_system_utils/processing copying build/lib/libtbx/queuing_system_utils/processing/submission.py -> build/bdist.linux-x86_64/wheel/./libtbx/queuing_system_utils/processing copying build/lib/libtbx/queuing_system_utils/processing/util.py -> build/bdist.linux-x86_64/wheel/./libtbx/queuing_system_utils/processing copying build/lib/libtbx/queuing_system_utils/processing/transfer.py -> build/bdist.linux-x86_64/wheel/./libtbx/queuing_system_utils/processing copying build/lib/libtbx/queuing_system_utils/processing/__init__.py -> build/bdist.linux-x86_64/wheel/./libtbx/queuing_system_utils/processing copying build/lib/libtbx/queuing_system_utils/processing/status.py -> build/bdist.linux-x86_64/wheel/./libtbx/queuing_system_utils/processing copying build/lib/libtbx/queuing_system_utils/processing/errors.py -> build/bdist.linux-x86_64/wheel/./libtbx/queuing_system_utils/processing copying build/lib/libtbx/queuing_system_utils/looping.py -> build/bdist.linux-x86_64/wheel/./libtbx/queuing_system_utils copying build/lib/libtbx/queuing_system_utils/__init__.py -> build/bdist.linux-x86_64/wheel/./libtbx/queuing_system_utils copying build/lib/libtbx/queuing_system_utils/scheduling.py -> build/bdist.linux-x86_64/wheel/./libtbx/queuing_system_utils copying build/lib/libtbx/queuing_system_utils/pbs_utils.py -> build/bdist.linux-x86_64/wheel/./libtbx/queuing_system_utils copying build/lib/libtbx/queuing_system_utils/scheduling_helpers.py -> build/bdist.linux-x86_64/wheel/./libtbx/queuing_system_utils copying build/lib/libtbx/queuing_system_utils/tst.py -> build/bdist.linux-x86_64/wheel/./libtbx/queuing_system_utils copying build/lib/libtbx/queuing_system_utils/generic.py -> build/bdist.linux-x86_64/wheel/./libtbx/queuing_system_utils copying build/lib/libtbx/queuing_system_utils/sge_utils.py -> build/bdist.linux-x86_64/wheel/./libtbx/queuing_system_utils copying build/lib/libtbx/tst_run_tests_parallel_unique_dirs.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/assert_utils.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/progress.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/tst_str_utils.py -> build/bdist.linux-x86_64/wheel/./libtbx creating build/bdist.linux-x86_64/wheel/libtbx/sphinx copying build/lib/libtbx/sphinx/phil.py -> build/bdist.linux-x86_64/wheel/./libtbx/sphinx copying build/lib/libtbx/sphinx/pubmed.py -> build/bdist.linux-x86_64/wheel/./libtbx/sphinx copying build/lib/libtbx/sphinx/__init__.py -> build/bdist.linux-x86_64/wheel/./libtbx/sphinx copying build/lib/libtbx/sphinx/python_string.py -> build/bdist.linux-x86_64/wheel/./libtbx/sphinx copying build/lib/libtbx/tst_mahalanobis.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/complex_math.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/tst_xmlrpc_utils.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/easy_profile.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/tst_utils.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/tst_thread_utils.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/tst_citations.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/table_utils.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/clear_paths.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/simplexml.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/tst_program_template.py -> build/bdist.linux-x86_64/wheel/./libtbx creating build/bdist.linux-x86_64/wheel/libtbx/scheduling copying build/lib/libtbx/scheduling/job_scheduler.py -> build/bdist.linux-x86_64/wheel/./libtbx/scheduling copying build/lib/libtbx/scheduling/mp_handler.py -> build/bdist.linux-x86_64/wheel/./libtbx/scheduling copying build/lib/libtbx/scheduling/socket_queue.py -> build/bdist.linux-x86_64/wheel/./libtbx/scheduling copying build/lib/libtbx/scheduling/cluster_handler.py -> build/bdist.linux-x86_64/wheel/./libtbx/scheduling copying build/lib/libtbx/scheduling/parallel_for.py -> build/bdist.linux-x86_64/wheel/./libtbx/scheduling copying build/lib/libtbx/scheduling/stacktrace.py -> build/bdist.linux-x86_64/wheel/./libtbx/scheduling copying build/lib/libtbx/scheduling/mainthread.py -> build/bdist.linux-x86_64/wheel/./libtbx/scheduling copying build/lib/libtbx/scheduling/thread_handler.py -> build/bdist.linux-x86_64/wheel/./libtbx/scheduling copying build/lib/libtbx/scheduling/shared_resource.py -> build/bdist.linux-x86_64/wheel/./libtbx/scheduling copying build/lib/libtbx/scheduling/file_queue.py -> build/bdist.linux-x86_64/wheel/./libtbx/scheduling copying build/lib/libtbx/scheduling/__init__.py -> build/bdist.linux-x86_64/wheel/./libtbx/scheduling copying build/lib/libtbx/scheduling/philgen.py -> build/bdist.linux-x86_64/wheel/./libtbx/scheduling copying build/lib/libtbx/scheduling/result.py -> build/bdist.linux-x86_64/wheel/./libtbx/scheduling copying build/lib/libtbx/scheduling/process_pool.py -> build/bdist.linux-x86_64/wheel/./libtbx/scheduling copying build/lib/libtbx/tst_scheduling.py -> build/bdist.linux-x86_64/wheel/./libtbx creating build/bdist.linux-x86_64/wheel/libtbx/phil copying build/lib/libtbx/phil/interface.py -> build/bdist.linux-x86_64/wheel/./libtbx/phil copying build/lib/libtbx/phil/tst_tokenizer.py -> build/bdist.linux-x86_64/wheel/./libtbx/phil copying build/lib/libtbx/phil/gui_objects.py -> build/bdist.linux-x86_64/wheel/./libtbx/phil copying build/lib/libtbx/phil/tst_interface.py -> build/bdist.linux-x86_64/wheel/./libtbx/phil copying build/lib/libtbx/phil/tst_experimental.py -> build/bdist.linux-x86_64/wheel/./libtbx/phil copying build/lib/libtbx/phil/tokenizer.py -> build/bdist.linux-x86_64/wheel/./libtbx/phil copying build/lib/libtbx/phil/parser.py -> build/bdist.linux-x86_64/wheel/./libtbx/phil copying build/lib/libtbx/phil/__init__.py -> build/bdist.linux-x86_64/wheel/./libtbx/phil copying build/lib/libtbx/phil/experimental.py -> build/bdist.linux-x86_64/wheel/./libtbx/phil copying build/lib/libtbx/phil/command_line.py -> build/bdist.linux-x86_64/wheel/./libtbx/phil copying build/lib/libtbx/phil/tst.py -> build/bdist.linux-x86_64/wheel/./libtbx/phil copying build/lib/libtbx/objgraph.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/object_oriented_patterns.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/cpp_function_name.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/tst_fully_buffered_timeout.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/log.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/pkg_utils.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/tst_representation.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/crossmingw.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/tst_easy_pickle.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/tst_easy_mp_state.py -> build/bdist.linux-x86_64/wheel/./libtbx creating build/bdist.linux-x86_64/wheel/libtbx/bundle copying build/lib/libtbx/bundle/copy_build_libtbx.py -> build/bdist.linux-x86_64/wheel/./libtbx/bundle copying build/lib/libtbx/bundle/install_csh.py -> build/bdist.linux-x86_64/wheel/./libtbx/bundle copying build/lib/libtbx/bundle/__init__.py -> build/bdist.linux-x86_64/wheel/./libtbx/bundle copying build/lib/libtbx/bundle/copy_all.py -> build/bdist.linux-x86_64/wheel/./libtbx/bundle copying build/lib/libtbx/bundle/copy_runtime_sources.py -> build/bdist.linux-x86_64/wheel/./libtbx/bundle copying build/lib/libtbx/bundle/install_bat.py -> build/bdist.linux-x86_64/wheel/./libtbx/bundle copying build/lib/libtbx/bundle/utils.py -> build/bdist.linux-x86_64/wheel/./libtbx/bundle copying build/lib/libtbx/tst_python_code_parsing.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/str_utils.py -> build/bdist.linux-x86_64/wheel/./libtbx creating build/bdist.linux-x86_64/wheel/libtbx/test_utils copying build/lib/libtbx/test_utils/parallel.py -> build/bdist.linux-x86_64/wheel/./libtbx/test_utils copying build/lib/libtbx/test_utils/__init__.py -> build/bdist.linux-x86_64/wheel/./libtbx/test_utils copying build/lib/libtbx/binary_search.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/tst_topological_sort.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/option_parser.py -> build/bdist.linux-x86_64/wheel/./libtbx creating build/bdist.linux-x86_64/wheel/libtbx/program_utils copying build/lib/libtbx/program_utils/statistics_info.py -> build/bdist.linux-x86_64/wheel/./libtbx/program_utils copying build/lib/libtbx/program_utils/__init__.py -> build/bdist.linux-x86_64/wheel/./libtbx/program_utils copying build/lib/libtbx/program_utils/result.py -> build/bdist.linux-x86_64/wheel/./libtbx/program_utils copying build/lib/libtbx/try_hello_world_c.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/pyframe.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/wingide.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/tst_find_unused_imports.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/__init__.py -> build/bdist.linux-x86_64/wheel/./libtbx creating build/bdist.linux-x86_64/wheel/libtbx/server copying build/lib/libtbx/server/StartServer.py -> build/bdist.linux-x86_64/wheel/./libtbx/server copying build/lib/libtbx/server/FileSocket.py -> build/bdist.linux-x86_64/wheel/./libtbx/server copying build/lib/libtbx/server/FileServer.py -> build/bdist.linux-x86_64/wheel/./libtbx/server copying build/lib/libtbx/server/__init__.py -> build/bdist.linux-x86_64/wheel/./libtbx/server copying build/lib/libtbx/server/FileClient.py -> build/bdist.linux-x86_64/wheel/./libtbx/server copying build/lib/libtbx/server/SocketServer.py -> build/bdist.linux-x86_64/wheel/./libtbx/server copying build/lib/libtbx/tst_add_docstrings_with_ai.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/env_config.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/tst_easy_mp_multicore.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/tst_dlite.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/start_print_trace.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/run_tests.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/easy_pickle.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/introspection.py -> build/bdist.linux-x86_64/wheel/./libtbx creating build/bdist.linux-x86_64/wheel/libtbx/auto_build copying build/lib/libtbx/auto_build/make_bundle.py -> build/bdist.linux-x86_64/wheel/./libtbx/auto_build copying build/lib/libtbx/auto_build/install_distribution.py -> build/bdist.linux-x86_64/wheel/./libtbx/auto_build copying build/lib/libtbx/auto_build/create_installer.py -> build/bdist.linux-x86_64/wheel/./libtbx/auto_build copying build/lib/libtbx/auto_build/regenerate_module_files.py -> build/bdist.linux-x86_64/wheel/./libtbx/auto_build copying build/lib/libtbx/auto_build/bootstrap.py -> build/bdist.linux-x86_64/wheel/./libtbx/auto_build copying build/lib/libtbx/auto_build/package_defs.py -> build/bdist.linux-x86_64/wheel/./libtbx/auto_build copying build/lib/libtbx/auto_build/create_mac_app.py -> build/bdist.linux-x86_64/wheel/./libtbx/auto_build copying build/lib/libtbx/auto_build/setup_installer.py -> build/bdist.linux-x86_64/wheel/./libtbx/auto_build copying build/lib/libtbx/auto_build/plus_installer.py -> build/bdist.linux-x86_64/wheel/./libtbx/auto_build copying build/lib/libtbx/auto_build/rpath.py -> build/bdist.linux-x86_64/wheel/./libtbx/auto_build copying build/lib/libtbx/auto_build/create_windows_exe.py -> build/bdist.linux-x86_64/wheel/./libtbx/auto_build copying build/lib/libtbx/auto_build/install_base_packages.py -> build/bdist.linux-x86_64/wheel/./libtbx/auto_build copying build/lib/libtbx/auto_build/create_windows_installer.py -> build/bdist.linux-x86_64/wheel/./libtbx/auto_build copying build/lib/libtbx/auto_build/installer_utils.py -> build/bdist.linux-x86_64/wheel/./libtbx/auto_build copying build/lib/libtbx/auto_build/__init__.py -> build/bdist.linux-x86_64/wheel/./libtbx/auto_build copying build/lib/libtbx/auto_build/write_gui_dispatcher_include.py -> build/bdist.linux-x86_64/wheel/./libtbx/auto_build copying build/lib/libtbx/auto_build/create_cctbx_bundle_for_installer.py -> build/bdist.linux-x86_64/wheel/./libtbx/auto_build copying build/lib/libtbx/auto_build/install_conda.py -> build/bdist.linux-x86_64/wheel/./libtbx/auto_build copying build/lib/libtbx/auto_build/create_mac_pkg.py -> build/bdist.linux-x86_64/wheel/./libtbx/auto_build copying build/lib/libtbx/tst_run_tests_parallel_retry.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/tst_word_index_generator.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/metric_prefixes.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/callbacks.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/tst_object_oriented_patterns.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/tst_easy_mp.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/mpi4py.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/libtbx_refresh.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/topological_sort.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/program_template.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/tst_math_utils.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/python_code_parsing.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/containers.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/tst_runtime_utils.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/load_env.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/easy_mp.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/runtime_utils.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/version.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/xmlrpc_server_example.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/subprocess_with_fixes.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/utils.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/pyplot.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/tst_path.py -> build/bdist.linux-x86_64/wheel/./libtbx creating build/bdist.linux-x86_64/wheel/cctbx_website creating build/bdist.linux-x86_64/wheel/cctbx_website/command_line copying build/lib/cctbx_website/command_line/extract_script_from_html_cctbx_doc.py -> build/bdist.linux-x86_64/wheel/./cctbx_website/command_line copying build/lib/cctbx_website/command_line/run_pdoc_cctbx_api.py -> build/bdist.linux-x86_64/wheel/./cctbx_website/command_line copying build/lib/cctbx_website/command_line/comment_to_docstring.py -> build/bdist.linux-x86_64/wheel/./cctbx_website/command_line copying build/lib/cctbx_website/command_line/tst_comment_to_docstring.py -> build/bdist.linux-x86_64/wheel/./cctbx_website/command_line copying build/lib/cctbx_website/command_line/edit_html.py -> build/bdist.linux-x86_64/wheel/./cctbx_website/command_line copying build/lib/cctbx_website/command_line/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx_website/command_line copying build/lib/cctbx_website/command_line/edit_for_boost.py -> build/bdist.linux-x86_64/wheel/./cctbx_website/command_line creating build/bdist.linux-x86_64/wheel/cctbx_website/regression copying build/lib/cctbx_website/regression/tst_3_doc_hlo_model_manager.py -> build/bdist.linux-x86_64/wheel/./cctbx_website/regression copying build/lib/cctbx_website/regression/tst_15_doc_models_hierarchy.py -> build/bdist.linux-x86_64/wheel/./cctbx_website/regression copying build/lib/cctbx_website/regression/tst_1_template.py -> build/bdist.linux-x86_64/wheel/./cctbx_website/regression copying build/lib/cctbx_website/regression/tst_5_doc_hlo_map_manager.py -> build/bdist.linux-x86_64/wheel/./cctbx_website/regression copying build/lib/cctbx_website/regression/tst_4_doc_hlo_data_manager.py -> build/bdist.linux-x86_64/wheel/./cctbx_website/regression copying build/lib/cctbx_website/regression/tst_6_doc_hlo_model_map_manager.py -> build/bdist.linux-x86_64/wheel/./cctbx_website/regression copying build/lib/cctbx_website/regression/tst_9_doc_maps_boxing.py -> build/bdist.linux-x86_64/wheel/./cctbx_website/regression copying build/lib/cctbx_website/regression/tst_py_from_html.py -> build/bdist.linux-x86_64/wheel/./cctbx_website/regression copying build/lib/cctbx_website/regression/exercise.py -> build/bdist.linux-x86_64/wheel/./cctbx_website/regression copying build/lib/cctbx_website/regression/tst_18_doc_programming_tips_2.py -> build/bdist.linux-x86_64/wheel/./cctbx_website/regression copying build/lib/cctbx_website/regression/tst_19_doc_programming_tips_3.py -> build/bdist.linux-x86_64/wheel/./cctbx_website/regression copying build/lib/cctbx_website/regression/tst_13_script_ideal_ss.py -> build/bdist.linux-x86_64/wheel/./cctbx_website/regression copying build/lib/cctbx_website/regression/tst_14_script_lbfgs_no_curvature.py -> build/bdist.linux-x86_64/wheel/./cctbx_website/regression copying build/lib/cctbx_website/regression/tst_10_doc_programming_tips_1.py -> build/bdist.linux-x86_64/wheel/./cctbx_website/regression copying build/lib/cctbx_website/regression/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx_website/regression copying build/lib/cctbx_website/regression/tst_17_script_rfactors.py -> build/bdist.linux-x86_64/wheel/./cctbx_website/regression copying build/lib/cctbx_website/regression/tst_2_doc_hlo_intro.py -> build/bdist.linux-x86_64/wheel/./cctbx_website/regression copying build/lib/cctbx_website/regression/tst_8_doc_maps_intro.py -> build/bdist.linux-x86_64/wheel/./cctbx_website/regression copying build/lib/cctbx_website/regression/tst_7_doc_low_flex_advanced.py -> build/bdist.linux-x86_64/wheel/./cctbx_website/regression copying build/lib/cctbx_website/regression/tst_12_script_compare_ss.py -> build/bdist.linux-x86_64/wheel/./cctbx_website/regression copying build/lib/cctbx_website/regression/tst_11_script_1.py -> build/bdist.linux-x86_64/wheel/./cctbx_website/regression copying build/lib/cctbx_website/regression/tst_16_script_lbfgs_with_curvature.py -> build/bdist.linux-x86_64/wheel/./cctbx_website/regression copying build/lib/cctbx_website/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx_website copying build/lib/cctbx_website/run_tests.py -> build/bdist.linux-x86_64/wheel/./cctbx_website copying build/lib/cctbx_website/libtbx_refresh.py -> build/bdist.linux-x86_64/wheel/./cctbx_website creating build/bdist.linux-x86_64/wheel/cbflib_adaptbx creating build/bdist.linux-x86_64/wheel/cbflib_adaptbx/command_line copying build/lib/cbflib_adaptbx/command_line/dump.py -> build/bdist.linux-x86_64/wheel/./cbflib_adaptbx/command_line copying build/lib/cbflib_adaptbx/command_line/__init__.py -> build/bdist.linux-x86_64/wheel/./cbflib_adaptbx/command_line copying build/lib/cbflib_adaptbx/copy_files.py -> build/bdist.linux-x86_64/wheel/./cbflib_adaptbx copying build/lib/cbflib_adaptbx/exercise_compression.py -> build/bdist.linux-x86_64/wheel/./cbflib_adaptbx copying build/lib/cbflib_adaptbx/__init__.py -> build/bdist.linux-x86_64/wheel/./cbflib_adaptbx copying build/lib/cbflib_adaptbx/run_tests.py -> build/bdist.linux-x86_64/wheel/./cbflib_adaptbx running install_egg_info Copying cctbx.egg-info to build/bdist.linux-x86_64/wheel/./cctbx-2023.12.egg-info running install_scripts creating build/bdist.linux-x86_64/wheel/cctbx-2023.12.dist-info/WHEEL creating '/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/.tmp-b41dz7ra/cctbx-2023.12-py3-none-any.whl' and adding 'build/bdist.linux-x86_64/wheel' to it adding 'annlib_adaptbx/__init__.py' adding 'annlib_adaptbx/run_tests.py' adding 'annlib_adaptbx/annlib_adaptbx/__init__.py' adding 'annlib_adaptbx/annlib_adaptbx/sample.py' adding 'annlib_adaptbx/annlib_adaptbx/self_match.py' adding 'annlib_adaptbx/source_generators/__init__.py' adding 'annlib_adaptbx/source_generators/generate_all.py' adding 'boost/__init__.py' adding 'boost/optional.py' adding 'boost/python.py' adding 'boost/rational.py' adding 'boost/std_pair.py' adding 'boost/tuple.py' adding 'boost_adaptbx/__init__.py' adding 'boost_adaptbx/hybrid_times.py' adding 'boost_adaptbx/libtbx_refresh.py' adding 'boost_adaptbx/run_tests.py' adding 'boost_adaptbx/boost/__init__.py' adding 'boost_adaptbx/boost/optional.py' adding 'boost_adaptbx/boost/python.py' adding 'boost_adaptbx/boost/rational.py' adding 'boost_adaptbx/boost/std_pair.py' adding 'boost_adaptbx/boost/tuple.py' adding 'boost_adaptbx/command_line/__init__.py' adding 'boost_adaptbx/command_line/divide_by_zero.py' adding 'boost_adaptbx/command_line/double_overflow.py' adding 'boost_adaptbx/command_line/gcd.py' adding 'boost_adaptbx/command_line/inexact.py' adding 'boost_adaptbx/command_line/int_overflow.py' adding 'boost_adaptbx/command_line/lcm.py' adding 'boost_adaptbx/command_line/nested_cpp_loops_with_check_signals.py' adding 'boost_adaptbx/command_line/segmentation_fault.py' adding 'boost_adaptbx/command_line/show_environ_usage.py' adding 'boost_adaptbx/command_line/show_platform_info.py' adding 'boost_adaptbx/graph/__init__.py' adding 'boost_adaptbx/graph/breadth_first_search.py' adding 'boost_adaptbx/graph/clustering_algorithm.py' adding 'boost_adaptbx/graph/connected_component_algorithm.py' adding 'boost_adaptbx/graph/graph_structure_comparison.py' adding 'boost_adaptbx/graph/maximum_clique.py' adding 'boost_adaptbx/graph/metric.py' adding 'boost_adaptbx/graph/min_cut_max_flow.py' adding 'boost_adaptbx/graph/minimum_cut_enumerate.py' adding 'boost_adaptbx/graph/utility.py' adding 'cbflib_adaptbx/__init__.py' adding 'cbflib_adaptbx/copy_files.py' adding 'cbflib_adaptbx/exercise_compression.py' adding 'cbflib_adaptbx/run_tests.py' adding 'cbflib_adaptbx/command_line/__init__.py' adding 'cbflib_adaptbx/command_line/dump.py' adding 'ccp4io_adaptbx/__init__.py' adding 'ccp4io_adaptbx/copy_files.py' adding 'ccp4io_adaptbx/tst.py' adding 'cctbx/__init__.py' adding 'cctbx/adptbx.py' adding 'cctbx/anharmonic.py' adding 'cctbx/crystal_orientation.py' adding 'cctbx/dmtbx.py' adding 'cctbx/euclidean_model_matching.py' adding 'cctbx/french_wilson.py' adding 'cctbx/libtbx_refresh.py' adding 'cctbx/math_module.py' adding 'cctbx/multipolar.py' adding 'cctbx/r_free_utils.py' adding 'cctbx/run_examples.py' adding 'cctbx/run_tests.py' adding 'cctbx/statistics.py' adding 'cctbx/symmetry_search.py' adding 'cctbx/translation_search.py' adding 'cctbx/adp_restraints/__init__.py' adding 'cctbx/adp_restraints/energies.py' adding 'cctbx/adp_restraints/flags.py' adding 'cctbx/adp_restraints/tst_ext.py' adding 'cctbx/array_family/__init__.py' adding 'cctbx/array_family/flex.py' adding 'cctbx/command_line/__init__.py' adding 'cctbx/command_line/auto_sharpen.py' adding 'cctbx/command_line/brehm_diederichs.py' adding 'cctbx/command_line/cctbx_test_nightly.py' adding 'cctbx/command_line/cod_select_and_pickle.py' adding 'cctbx/command_line/diffuse.py' adding 'cctbx/command_line/eltbx.show_fp_fdp.py' adding 'cctbx/command_line/euclidean_model_matching.py' adding 'cctbx/command_line/find_reticular_twin_laws.py' adding 'cctbx/command_line/form_factor_query.py' adding 'cctbx/command_line/precession_view.py' adding 'cctbx/command_line/qscore.py' adding 'cctbx/command_line/samosa_join.py' adding 'cctbx/command_line/samosa_scale.py' adding 'cctbx/command_line/segment_and_split_map.py' adding 'cctbx/command_line/space_group_info.py' adding 'cctbx/command_line/structure_factor_timings.py' adding 'cctbx/command_line/subgroups.py' adding 'cctbx/command_line/version.py' adding 'cctbx/command_line/wavelength_units.py' adding 'cctbx/covariance/__init__.py' adding 'cctbx/crystal/__init__.py' adding 'cctbx/crystal/burzlaff_zimmermann_dewolff.py' adding 'cctbx/crystal/close_packing.py' adding 'cctbx/crystal/coordination_sequences.py' adding 'cctbx/crystal/direct_space_asu.py' adding 'cctbx/crystal/distance_based_connectivity.py' adding 'cctbx/crystal/find_best_cell.py' adding 'cctbx/crystal/reindex.py' adding 'cctbx/crystal/super_cell.py' adding 'cctbx/crystal/tst_distance_based_connectivity.py' adding 'cctbx/crystal/tst_ext.py' adding 'cctbx/crystal/tst_super_cell.py' adding 'cctbx/development/__init__.py' adding 'cctbx/development/approx_amplitude_vs_resolution.py' adding 'cctbx/development/cns_density_modification.py' adding 'cctbx/development/create_models_or_maps.py' adding 'cctbx/development/debug_utils.py' adding 'cctbx/development/direct_or_fft.py' adding 'cctbx/development/electron_density_sampling.py' adding 'cctbx/development/fmt_utils.py' adding 'cctbx/development/github.py' adding 'cctbx/development/make_cns_input.py' adding 'cctbx/development/make_settings.py' adding 'cctbx/development/random_structure.py' adding 'cctbx/development/run_shelx.py' adding 'cctbx/development/run_shelx76.py' adding 'cctbx/development/space_group_option_parser.py' adding 'cctbx/development/structure_factor_utils.py' adding 'cctbx/development/tst_cns_epsilon.py' adding 'cctbx/development/tst_cns_hl.py' adding 'cctbx/eltbx/__init__.py' adding 'cctbx/eltbx/attenuation_coefficient.py' adding 'cctbx/eltbx/chemical_elements.py' adding 'cctbx/eltbx/covalent_radii.py' adding 'cctbx/eltbx/distance_based_connectivity.py' adding 'cctbx/eltbx/e_scattering.py' adding 'cctbx/eltbx/formula.py' adding 'cctbx/eltbx/fp_fdp.py' adding 'cctbx/eltbx/gaussian_fit.py' adding 'cctbx/eltbx/henke.py' adding 'cctbx/eltbx/icsd_radii.py' adding 'cctbx/eltbx/neutron.py' adding 'cctbx/eltbx/read_custom_scattering_dict.py' adding 'cctbx/eltbx/sasaki.py' adding 'cctbx/eltbx/tiny_pse.py' adding 'cctbx/eltbx/van_der_waals_radii.py' adding 'cctbx/eltbx/wavelengths.py' adding 'cctbx/eltbx/development/__init__.py' adding 'cctbx/eltbx/development/combine_fits.py' adding 'cctbx/eltbx/development/create_n_gaussian_raw_cpp.py' adding 'cctbx/eltbx/development/e_scattering_plots.py' adding 'cctbx/eltbx/development/format_gaussian_fits.py' adding 'cctbx/eltbx/development/hydrogen_plots.py' adding 'cctbx/eltbx/development/itvc_approx.py' adding 'cctbx/eltbx/development/itvc_cross_validation.py' adding 'cctbx/eltbx/development/itvc_fits.py' adding 'cctbx/eltbx/development/itvc_kissel.py' adding 'cctbx/eltbx/development/itvc_section61_io.py' adding 'cctbx/eltbx/development/kissel_fits.py' adding 'cctbx/eltbx/development/kissel_io.py' adding 'cctbx/eltbx/development/rez_rez_grant.py' adding 'cctbx/eltbx/xray_scattering/__init__.py' adding 'cctbx/examples/__init__.py' adding 'cctbx/examples/adp_symmetry_constraints.py' adding 'cctbx/examples/all_axes.py' adding 'cctbx/examples/analyze_adp.py' adding 'cctbx/examples/ccp4_map.py' adding 'cctbx/examples/change_hand_p31.py' adding 'cctbx/examples/convert_ccp4_symop_lib.py' adding 'cctbx/examples/cr2o3_consistency_checks.py' adding 'cctbx/examples/cr2o3_primitive_cell.py' adding 'cctbx/examples/exp_i_alpha_derivatives.py' adding 'cctbx/examples/f_model_example.py' adding 'cctbx/examples/fft_map_electron_density_around_atom.py' adding 'cctbx/examples/find_distances_using_cpp_objects.py' adding 'cctbx/examples/find_sys_abs_equiv_space_groups.py' adding 'cctbx/examples/g_exp_i_alpha_derivatives.py' adding 'cctbx/examples/g_exp_i_partial_derivatives.py' adding 'cctbx/examples/getting_started.py' adding 'cctbx/examples/hirshfeld_test.py' adding 'cctbx/examples/le_page_1982_vs_lebedev_2005.py' adding 'cctbx/examples/lebedev_2005_perturbation.py' adding 'cctbx/examples/list_non_principal_continuous_shifts.py' adding 'cctbx/examples/location_part.py' adding 'cctbx/examples/map_skewness.py' adding 'cctbx/examples/maximum_subgroups.py' adding 'cctbx/examples/miller_common_sets.py' adding 'cctbx/examples/miller_transform.py' adding 'cctbx/examples/neutron_structure_factors.py' adding 'cctbx/examples/phase_o_phrenia.py' adding 'cctbx/examples/quartz_structure.py' adding 'cctbx/examples/random_f_calc.py' adding 'cctbx/examples/random_puckers.py' adding 'cctbx/examples/reduced_cell_two_folds.py' adding 'cctbx/examples/site_symmetry_constraints.py' adding 'cctbx/examples/site_symmetry_table.py' adding 'cctbx/examples/space_group_matrices.py' adding 'cctbx/examples/space_subgroups.py' adding 'cctbx/examples/steve_collins.py' adding 'cctbx/examples/structure_factor_derivatives.py' adding 'cctbx/examples/structure_factor_derivatives_2.py' adding 'cctbx/examples/structure_factor_derivatives_3.py' adding 'cctbx/examples/structure_factor_derivatives_4.py' adding 'cctbx/examples/sub_group_graph.py' adding 'cctbx/examples/symops_530.py' adding 'cctbx/examples/trigonal_r_vs_tetragonal_i.py' adding 'cctbx/examples/tst_exp_i_alpha_derivatives.py' adding 'cctbx/examples/tst_g_exp_i_alpha_derivatives.py' adding 'cctbx/examples/tst_phase_o_phrenia.py' adding 'cctbx/examples/tst_space_subgroups.py' adding 'cctbx/examples/tst_structure_factor_derivatives.py' adding 'cctbx/examples/tst_structure_factor_derivatives_2.py' adding 'cctbx/examples/tst_structure_factor_derivatives_3.py' adding 'cctbx/examples/tst_structure_factor_derivatives_4.py' adding 'cctbx/examples/unit_cell_minimizers.py' adding 'cctbx/examples/unit_cell_refinement.py' adding 'cctbx/examples/view_fft_map.py' adding 'cctbx/examples/merging/__init__.py' adding 'cctbx/examples/merging/data_subset.py' adding 'cctbx/examples/merging/data_utilities.py' adding 'cctbx/examples/merging/show_results.py' adding 'cctbx/examples/merging/sigma_correction.py' adding 'cctbx/examples/merging/task4.py' adding 'cctbx/examples/merging/test1.py' adding 'cctbx/examples/merging/test_cc_half.py' adding 'cctbx/examples/merging/test_levenberg_sparse.py' adding 'cctbx/examples/merging/tst_permutations.py' adding 'cctbx/examples/merging/samosa/__init__.py' adding 'cctbx/examples/merging/samosa/join.py' adding 'cctbx/examples/merging/samosa/per_lattice_postrefinement.py' adding 'cctbx/examples/merging/samosa/scale.py' adding 'cctbx/examples/structure_factor_calculus/__init__.py' adding 'cctbx/examples/structure_factor_calculus/site_derivatives.py' adding 'cctbx/examples/structure_factor_calculus/sites_derivatives.py' adding 'cctbx/examples/structure_factor_calculus/sites_least_squares_derivatives.py' adding 'cctbx/examples/structure_factor_calculus/u_star_derivatives.py' adding 'cctbx/geometry/__init__.py' adding 'cctbx/geometry_restraints/__init__.py' adding 'cctbx/geometry_restraints/auto_linking_types.py' adding 'cctbx/geometry_restraints/base_geometry.py' adding 'cctbx/geometry_restraints/distance_least_squares.py' adding 'cctbx/geometry_restraints/energies.py' adding 'cctbx/geometry_restraints/flags.py' adding 'cctbx/geometry_restraints/lbfgs.py' adding 'cctbx/geometry_restraints/linking_class.py' adding 'cctbx/geometry_restraints/manager.py' adding 'cctbx/geometry_restraints/process_nonbonded_proxies.py' adding 'cctbx/geometry_restraints/standard_cif_links.py' adding 'cctbx/geometry_restraints/tst_angle_derivs.py' adding 'cctbx/geometry_restraints/tst_ext.py' adding 'cctbx/geometry_restraints/tst_motif.py' adding 'cctbx/geometry_restraints/tst_process_nonbonded_proxies.py' adding 'cctbx/geometry_restraints/tst_proxy_registry.py' adding 'cctbx/macro_mol/__init__.py' adding 'cctbx/macro_mol/rotation_parameters.py' adding 'cctbx/maptbx/__init__.py' adding 'cctbx/maptbx/auto_sharpen.py' adding 'cctbx/maptbx/box.py' adding 'cctbx/maptbx/fsc_curve.py' adding 'cctbx/maptbx/map_symmetry.py' adding 'cctbx/maptbx/mask.py' adding 'cctbx/maptbx/mem.py' adding 'cctbx/maptbx/minimization.py' adding 'cctbx/maptbx/prepare_map_for_docking.py' adding 'cctbx/maptbx/prepare_map_for_refinement.py' adding 'cctbx/maptbx/qscore.py' adding 'cctbx/maptbx/real_space_refinement_simple.py' adding 'cctbx/maptbx/refine_scales_errors.py' adding 'cctbx/maptbx/refine_sharpening.py' adding 'cctbx/maptbx/resolution_from_map_and_model.py' adding 'cctbx/maptbx/segment_and_split_map.py' adding 'cctbx/maptbx/tst_asymmetric_map.py' adding 'cctbx/maptbx/tst_atom_curves.py' adding 'cctbx/maptbx/tst_atom_radius_as_central_peak_width.py' adding 'cctbx/maptbx/tst_bcr.py' adding 'cctbx/maptbx/tst_ccp.py' adding 'cctbx/maptbx/tst_get_percentile_cutoffs.py' adding 'cctbx/maptbx/tst_interpolation.py' adding 'cctbx/maptbx/tst_interpolation_2.py' adding 'cctbx/maptbx/tst_loft.py' adding 'cctbx/maptbx/tst_map_peak_3d_as_2d.py' adding 'cctbx/maptbx/tst_mask.py' adding 'cctbx/maptbx/tst_peak_volume_estimate.py' adding 'cctbx/maptbx/tst_qscore.py' adding 'cctbx/maptbx/tst_real_space_refinement_simple.py' adding 'cctbx/maptbx/tst_resolution_from_map_and_model.py' adding 'cctbx/maptbx/tst_target_and_gradients.py' adding 'cctbx/maptbx/bcr/__init__.py' adding 'cctbx/maptbx/bcr/bcr.py' adding 'cctbx/maptbx/bcr/compute_tables.py' adding 'cctbx/maptbx/bcr/qmap.py' adding 'cctbx/maptbx/bcr/tst_adp_refine.py' adding 'cctbx/maptbx/bcr/tst_example.py' adding 'cctbx/maptbx/bcr/tst_qmap_02.py' adding 'cctbx/maptbx/bcr/tst_table.py' adding 'cctbx/maptbx/bcr/tst_two_atoms.py' adding 'cctbx/maptbx/bcr/tst_vrm.py' adding 'cctbx/maptbx/bcr/tst_vrm2.py' adding 'cctbx/masks/__init__.py' adding 'cctbx/merging/__init__.py' adding 'cctbx/merging/brehm_diederichs.py' adding 'cctbx/miller/__init__.py' adding 'cctbx/miller/display.py' adding 'cctbx/miller/reindexing.py' adding 'cctbx/miller/tst_map_to_asu_isym.py' adding 'cctbx/miller/tst_reindexing.py' adding 'cctbx/neutron/__init__.py' adding 'cctbx/omz/__init__.py' adding 'cctbx/omz/bfgs.py' adding 'cctbx/omz/cif_refine.py' adding 'cctbx/omz/cod_refine.py' adding 'cctbx/omz/cod_select_and_pickle.py' adding 'cctbx/omz/dev.py' adding 'cctbx/omz/eval_iso_vs_refined.py' adding 'cctbx/omz/pdb_dev.py' adding 'cctbx/omz/tardy_adaptor.py' adding 'cctbx/omz/tst_bfgs.py' adding 'cctbx/omz/tst_dev.py' adding 'cctbx/regression/__init__.py' adding 'cctbx/regression/tst_adp_aniso_restraints.py' adding 'cctbx/regression/tst_adp_constraints.py' adding 'cctbx/regression/tst_adp_constraints_cartesian.py' adding 'cctbx/regression/tst_amplitude_normalisation.py' adding 'cctbx/regression/tst_change_basis.py' adding 'cctbx/regression/tst_connectivity.py' adding 'cctbx/regression/tst_connectivity_allsym.py' adding 'cctbx/regression/tst_coordination_sequences.py' adding 'cctbx/regression/tst_create_models_or_maps.py' adding 'cctbx/regression/tst_crystal.py' adding 'cctbx/regression/tst_crystal_asu_clusters.py' adding 'cctbx/regression/tst_crystal_close_packing.py' adding 'cctbx/regression/tst_diffuse.py' adding 'cctbx/regression/tst_direct_scaling.py' adding 'cctbx/regression/tst_direct_space_asu.py' adding 'cctbx/regression/tst_emma.py' adding 'cctbx/regression/tst_expand_to_p1.py' adding 'cctbx/regression/tst_f_model.py' adding 'cctbx/regression/tst_fast_nv1995.py' adding 'cctbx/regression/tst_fcalc_fft_stability.py' adding 'cctbx/regression/tst_find_best_cell.py' adding 'cctbx/regression/tst_fourier_transform_real_part_at_x.py' adding 'cctbx/regression/tst_french_wilson.py' adding 'cctbx/regression/tst_geometry_restraints.py' adding 'cctbx/regression/tst_geometry_restraints_2.py' adding 'cctbx/regression/tst_geometry_restraints_lbfgs.py' adding 'cctbx/regression/tst_grm_modifications.py' adding 'cctbx/regression/tst_grm_modifications_rm.py' adding 'cctbx/regression/tst_grm_pickling.py' adding 'cctbx/regression/tst_grouped_data.py' adding 'cctbx/regression/tst_itvb_2001_table_a1427_hall_symbols.py' adding 'cctbx/regression/tst_krivy_gruber.py' adding 'cctbx/regression/tst_loc_res.py' adding 'cctbx/regression/tst_map_is_periodic.py' adding 'cctbx/regression/tst_map_weights_for_symmetry_summation.py' adding 'cctbx/regression/tst_maptbx_box.py' adding 'cctbx/regression/tst_maptbx_mask.py' adding 'cctbx/regression/tst_maptbx_structure_factors.py' adding 'cctbx/regression/tst_math_module.py' adding 'cctbx/regression/tst_mem.py' adding 'cctbx/regression/tst_mem_2.py' adding 'cctbx/regression/tst_miller.py' adding 'cctbx/regression/tst_miller_data_manipulation.py' adding 'cctbx/regression/tst_miller_double_step_filtration.py' adding 'cctbx/regression/tst_miller_fft_map.py' adding 'cctbx/regression/tst_miller_lookup_utils.py' adding 'cctbx/regression/tst_miller_merge_equivalents.py' adding 'cctbx/regression/tst_miller_statistics.py' adding 'cctbx/regression/tst_niggli_reduction_cpp.py' adding 'cctbx/regression/tst_pair_asu_table.py' adding 'cctbx/regression/tst_pointgroup_tools.py' adding 'cctbx/regression/tst_prepare_map_for_docking.py' adding 'cctbx/regression/tst_r_free_utils.py' adding 'cctbx/regression/tst_reciprocal_space_asu.py' adding 'cctbx/regression/tst_refine_xray_curvs.py' adding 'cctbx/regression/tst_reflection_statistics.py' adding 'cctbx/regression/tst_sampled_model_density.py' adding 'cctbx/regression/tst_sf_low_res_accuracy.py' adding 'cctbx/regression/tst_sgtbx.py' adding 'cctbx/regression/tst_sgtbx_denominators.py' adding 'cctbx/regression/tst_sgtbx_harker.py' adding 'cctbx/regression/tst_sgtbx_lattice_symmetry.py' adding 'cctbx/regression/tst_sgtbx_site_constraints.py' adding 'cctbx/regression/tst_sgtbx_special_op_simplifier.py' adding 'cctbx/regression/tst_sgtbx_subgroups.py' adding 'cctbx/regression/tst_sgtbx_tidy_pickling.py' adding 'cctbx/regression/tst_show_cosets.py' adding 'cctbx/regression/tst_space_group_type_tidy_cb_op_t.py' adding 'cctbx/regression/tst_sphericity.py' adding 'cctbx/regression/tst_statistics_graphs.py' adding 'cctbx/regression/tst_triplet_generator.py' adding 'cctbx/regression/tst_twin_target.py' adding 'cctbx/regression/tst_wavelength_units.py' adding 'cctbx/regression/tst_web_change_basis.py' adding 'cctbx/regression/tst_weighting_schemes.py' adding 'cctbx/regression/tst_wilson_plot.py' adding 'cctbx/regression/tst_xray.py' adding 'cctbx/regression/tst_xray_derivatives.py' adding 'cctbx/regression/tst_xray_fast_gradients.py' adding 'cctbx/regression/tst_xray_minimization.py' adding 'cctbx/regression/tst_xray_minimization_failure.py' adding 'cctbx/regression/tst_xray_target_functors.py' adding 'cctbx/sgtbx/__init__.py' adding 'cctbx/sgtbx/bravais_types.py' adding 'cctbx/sgtbx/cosets.py' adding 'cctbx/sgtbx/harker.py' adding 'cctbx/sgtbx/lattice_symmetry.py' adding 'cctbx/sgtbx/literal_description.py' adding 'cctbx/sgtbx/plane_groups.py' adding 'cctbx/sgtbx/pointgroup_tools.py' adding 'cctbx/sgtbx/rational_matrices_point_groups.py' adding 'cctbx/sgtbx/reticular_pg_tools.py' adding 'cctbx/sgtbx/reticular_twin_laws.py' adding 'cctbx/sgtbx/show_cosets.py' adding 'cctbx/sgtbx/sub_lattice_tools.py' adding 'cctbx/sgtbx/subgroups.py' adding 'cctbx/sgtbx/symbol_confidence.py' adding 'cctbx/sgtbx/sys_abs_equiv.py' adding 'cctbx/sgtbx/direct_space_asu/__init__.py' adding 'cctbx/sgtbx/direct_space_asu/check_redundancies.py' adding 'cctbx/sgtbx/direct_space_asu/cut_plane.py' adding 'cctbx/sgtbx/direct_space_asu/facet_analysis.py' adding 'cctbx/sgtbx/direct_space_asu/plane_group_reference_table.py' adding 'cctbx/sgtbx/direct_space_asu/reference_table.py' adding 'cctbx/sgtbx/direct_space_asu/short_cuts.py' adding 'cctbx/sgtbx/direct_space_asu/proto/__init__.py' adding 'cctbx/sgtbx/direct_space_asu/proto/generate_cpp_asu_table.py' adding 'cctbx/sgtbx/direct_space_asu/proto/tst_asu.py' adding 'cctbx/source_generators/__init__.py' adding 'cctbx/source_generators/flex_fwd_h.py' adding 'cctbx/source_generators/eltbx/__init__.py' adding 'cctbx/source_generators/eltbx/generate_henke_cpp.py' adding 'cctbx/source_generators/eltbx/generate_sasaki_cpp.py' adding 'cctbx/uctbx/__init__.py' adding 'cctbx/uctbx/gruber_1973.py' adding 'cctbx/uctbx/gruber_1973_table_1.py' adding 'cctbx/uctbx/krivy_gruber_1976.py' adding 'cctbx/uctbx/reduction_base.py' adding 'cctbx/uctbx/determine_unit_cell/__init__.py' adding 'cctbx/web/__init__.py' adding 'cctbx/web/all_axes.py' adding 'cctbx/web/browse_settings.py' adding 'cctbx/web/cgi_utils.py' adding 'cctbx/web/change_basis.py' adding 'cctbx/web/change_hand.py' adding 'cctbx/web/change_setting.py' adding 'cctbx/web/dispatcher.py' adding 'cctbx/web/emma.py' adding 'cctbx/web/explore_symmetry.py' adding 'cctbx/web/frac_cart.py' adding 'cctbx/web/io_utils.py' adding 'cctbx/web/iotbx_cif_validate.py' adding 'cctbx/web/lattice_symmetry.py' adding 'cctbx/web/libtbx_help.py' adding 'cctbx/web/multiple_cell.py' adding 'cctbx/web/phase_o_phrenia.py' adding 'cctbx/web/replay.py' adding 'cctbx/web/shelx.py' adding 'cctbx/web/structure_factors.py' adding 'cctbx/web/structure_factors_pdb.py' adding 'cctbx/web/wyckoff.py' adding 'cctbx/web/asu_gallery/__init__.py' adding 'cctbx/web/asu_gallery/guide_to_notation.py' adding 'cctbx/web/asu_gallery/jv_asu.py' adding 'cctbx/web/asu_gallery/jv_index.py' adding 'cctbx/web/asu_gallery/jvx.py' adding 'cctbx/web/asu_gallery/web_links.py' adding 'cctbx/xray/__init__.py' adding 'cctbx/xray/ext.py' adding 'cctbx/xray/minimization.py' adding 'cctbx/xray/observation_types.py' adding 'cctbx/xray/scatterer.py' adding 'cctbx/xray/structure.py' adding 'cctbx/xray/target_functors.py' adding 'cctbx/xray/weighting_schemes.py' adding 'cctbx/xray/observations/__init__.py' adding 'cctbx/xray/observations/tst_observations.py' adding 'cctbx/xray/structure_factors/__init__.py' adding 'cctbx/xray/structure_factors/algorithm.py' adding 'cctbx/xray/structure_factors/from_scatterers.py' adding 'cctbx/xray/structure_factors/from_scatterers_direct.py' adding 'cctbx/xray/structure_factors/from_scatterers_direct_parallel.py' adding 'cctbx/xray/structure_factors/from_scatterers_fft.py' adding 'cctbx/xray/structure_factors/global_counters.py' adding 'cctbx/xray/structure_factors/gradient_flags.py' adding 'cctbx/xray/structure_factors/gradients.py' adding 'cctbx/xray/structure_factors/gradients_base.py' adding 'cctbx/xray/structure_factors/gradients_direct.py' adding 'cctbx/xray/structure_factors/gradients_fft.py' adding 'cctbx/xray/structure_factors/manager.py' adding 'cctbx/xray/structure_factors/misc.py' adding 'cctbx/xray/targets/__init__.py' adding 'cctbx/xray/targets/r1.py' adding 'cctbx/xray/targets/tst_r1.py' adding 'cctbx/xray/targets/tst_shelxl_wght_ls.py' adding 'cctbx-2023.12.dist-info/licenses/LICENSE.txt' adding 'cctbx_website/__init__.py' adding 'cctbx_website/libtbx_refresh.py' adding 'cctbx_website/run_tests.py' adding 'cctbx_website/command_line/__init__.py' adding 'cctbx_website/command_line/comment_to_docstring.py' adding 'cctbx_website/command_line/edit_for_boost.py' adding 'cctbx_website/command_line/edit_html.py' adding 'cctbx_website/command_line/extract_script_from_html_cctbx_doc.py' adding 'cctbx_website/command_line/run_pdoc_cctbx_api.py' adding 'cctbx_website/command_line/tst_comment_to_docstring.py' adding 'cctbx_website/regression/__init__.py' adding 'cctbx_website/regression/exercise.py' adding 'cctbx_website/regression/tst_10_doc_programming_tips_1.py' adding 'cctbx_website/regression/tst_11_script_1.py' adding 'cctbx_website/regression/tst_12_script_compare_ss.py' adding 'cctbx_website/regression/tst_13_script_ideal_ss.py' adding 'cctbx_website/regression/tst_14_script_lbfgs_no_curvature.py' adding 'cctbx_website/regression/tst_15_doc_models_hierarchy.py' adding 'cctbx_website/regression/tst_16_script_lbfgs_with_curvature.py' adding 'cctbx_website/regression/tst_17_script_rfactors.py' adding 'cctbx_website/regression/tst_18_doc_programming_tips_2.py' adding 'cctbx_website/regression/tst_19_doc_programming_tips_3.py' adding 'cctbx_website/regression/tst_1_template.py' adding 'cctbx_website/regression/tst_2_doc_hlo_intro.py' adding 'cctbx_website/regression/tst_3_doc_hlo_model_manager.py' adding 'cctbx_website/regression/tst_4_doc_hlo_data_manager.py' adding 'cctbx_website/regression/tst_5_doc_hlo_map_manager.py' adding 'cctbx_website/regression/tst_6_doc_hlo_model_map_manager.py' adding 'cctbx_website/regression/tst_7_doc_low_flex_advanced.py' adding 'cctbx_website/regression/tst_8_doc_maps_intro.py' adding 'cctbx_website/regression/tst_9_doc_maps_boxing.py' adding 'cctbx_website/regression/tst_py_from_html.py' adding 'cma_es/__init__.py' adding 'cma_es/cma_es_interface.py' adding 'cma_es/run_tests.py' adding 'cma_es/tst_cma_es.py' adding 'cootbx/__init__.py' adding 'cootbx/hydrogens_button.py' adding 'cootbx/interactive_edit.py' adding 'cootbx/ligand_checklist.py' adding 'cootbx/simple_zoom_list.py' adding 'cootbx/validation_lists.py' adding 'cootbx/view_refinement.py' adding 'cootbx/watch_file.py' adding 'cootbx/xmlrpc_server.py' adding 'fable/__init__.py' adding 'fable/cout.py' adding 'fable/equivalence.py' adding 'fable/intrinsics.py' adding 'fable/read.py' adding 'fable/run_tests.py' adding 'fable/simple_compilation.py' adding 'fable/tokenization.py' adding 'fable/tst_cout.py' adding 'fable/tst_cout_compile.py' adding 'fable/tst_equivalence.py' adding 'fable/tst_ext.py' adding 'fable/tst_read.py' adding 'fable/utils.py' adding 'fable/command_line/__init__.py' adding 'fable/command_line/cout.py' adding 'fable/command_line/fem_include_search_paths.py' adding 'fable/command_line/insert_write_at_start_of_each_procedure.py' adding 'fable/command_line/read.py' adding 'fable/command_line/show_calls.py' adding 'fable/command_line/split.py' adding 'fast_linalg/__init__.py' adding 'fftw3tbx/__init__.py' adding 'fftw3tbx/libtbx_refresh.py' adding 'fftw3tbx/tst_ext.py' adding 'gltbx/__init__.py' adding 'gltbx/extract_opengl_specs.py' adding 'gltbx/fonts.py' adding 'gltbx/generate_defines_bpl.py' adding 'gltbx/generate_fonts_ucs_cpp.py' adding 'gltbx/generate_functions_bpl.py' adding 'gltbx/gl.py' adding 'gltbx/gl_managed.py' adding 'gltbx/glu.py' adding 'gltbx/images.py' adding 'gltbx/libtbx_refresh.py' adding 'gltbx/quadrics.py' adding 'gltbx/run_tests.py' adding 'gltbx/tst.py' adding 'gltbx/tst_ellipsoids.py' adding 'gltbx/tst_fonts.py' adding 'gltbx/tst_viewer_utils.py' adding 'gltbx/util.py' adding 'gltbx/viewer_utils.py' adding 'gltbx/wx_cube.py' adding 'gltbx/wx_ellipsoids_test.py' adding 'gltbx/wx_motion_on_tab.py' adding 'gltbx/wx_scene.py' adding 'gltbx/wx_viewer.py' adding 'gltbx/wx_viewer_example.py' adding 'gltbx/wx_viewer_leapmotion.py' adding 'gltbx/wx_viewers_images.py' adding 'gltbx/command_line/__init__.py' adding 'gltbx/command_line/try_imports.py' adding 'iotbx/__init__.py' adding 'iotbx/builders.py' adding 'iotbx/builders_depending_on_smtbx.py' adding 'iotbx/cif_mtz_data_labels.py' adding 'iotbx/cli_parser.py' adding 'iotbx/crystal_symmetry_from_any.py' adding 'iotbx/csv_utils.py' adding 'iotbx/data_plots.py' adding 'iotbx/extract_xtal_data.py' adding 'iotbx/file_reader.py' adding 'iotbx/format.py' adding 'iotbx/libtbx_refresh.py' adding 'iotbx/logfiles.py' adding 'iotbx/map_manager.py' adding 'iotbx/map_model_manager.py' adding 'iotbx/map_tools.py' adding 'iotbx/merging_statistics.py' adding 'iotbx/mtrix_biomt.py' adding 'iotbx/option_parser.py' adding 'iotbx/phases.py' adding 'iotbx/phil.py' adding 'iotbx/poscar.py' adding 'iotbx/pymol.py' adding 'iotbx/ranges.py' adding 'iotbx/reflection_file_converter.py' adding 'iotbx/reflection_file_editor.py' adding 'iotbx/reflection_file_reader.py' adding 'iotbx/reflection_file_utils.py' adding 'iotbx/run_tests.py' adding 'iotbx/simple_parser.py' adding 'iotbx/symmetry.py' adding 'iotbx/table_one.py' adding 'iotbx/wildcard.py' adding 'iotbx/PrettyPrint/__init__.py' adding 'iotbx/PrettyPrint/tables.py' adding 'iotbx/bioinformatics/__init__.py' adding 'iotbx/bioinformatics/alignment_as_hsearch.py' adding 'iotbx/bioinformatics/ebi_wu_blast_xml.py' adding 'iotbx/bioinformatics/homologues.py' adding 'iotbx/bioinformatics/local_blast.py' adding 'iotbx/bioinformatics/ncbi_blast_xml.py' adding 'iotbx/bioinformatics/pdb_info.py' adding 'iotbx/bioinformatics/pubmed.py' adding 'iotbx/bioinformatics/structure.py' adding 'iotbx/bioinformatics/xmlbuild.py' adding 'iotbx/ccp4_map/__init__.py' adding 'iotbx/ccp4_map/crystal_symmetry_from_ccp4_map.py' adding 'iotbx/ccp4_map/tst.py' adding 'iotbx/cif/__init__.py' adding 'iotbx/cif/builders.py' adding 'iotbx/cif/citations.py' adding 'iotbx/cif/cod_tools.py' adding 'iotbx/cif/crystal_symmetry_from_cif.py' adding 'iotbx/cif/errors.py' adding 'iotbx/cif/geometry.py' adding 'iotbx/cif/model.py' adding 'iotbx/cif/restraint_file_merge.py' adding 'iotbx/cif/restraints.py' adding 'iotbx/cif/validation.py' adding 'iotbx/cns/__init__.py' adding 'iotbx/cns/crystal_symmetry_from_inp.py' adding 'iotbx/cns/crystal_symmetry_from_sdb.py' adding 'iotbx/cns/crystal_symmetry_utils.py' adding 'iotbx/cns/index_fobs_sigma_reader.py' adding 'iotbx/cns/miller_array.py' adding 'iotbx/cns/pdb_remarks.py' adding 'iotbx/cns/reflection_reader.py' adding 'iotbx/cns/sdb_reader.py' adding 'iotbx/cns/sdb_writer.py' adding 'iotbx/cns/space_group_symbols.py' adding 'iotbx/cns/tst_cns.py' adding 'iotbx/cns/xray_structure.py' adding 'iotbx/command_line/__init__.py' adding 'iotbx/command_line/biomt_reconstruction.py' adding 'iotbx/command_line/blast_pdb.py' adding 'iotbx/command_line/build_phil_cache.py' adding 'iotbx/command_line/cbf_read.py' adding 'iotbx/command_line/cif.as_miller_arrays.py' adding 'iotbx/command_line/cif.as_xray_structure.py' adding 'iotbx/command_line/cif.validate.py' adding 'iotbx/command_line/cif_as_pdb.py' adding 'iotbx/command_line/cns.reflection_reader.py' adding 'iotbx/command_line/cns.sdb_reader.py' adding 'iotbx/command_line/cns.transfer_crystal_symmetry.py' adding 'iotbx/command_line/cns_as_mtz.py' adding 'iotbx/command_line/crystal_symmetry_from_any.py' adding 'iotbx/command_line/csv_as_mtz.py' adding 'iotbx/command_line/dano_as_amplitudes.py' adding 'iotbx/command_line/detector_image_as_png.py' adding 'iotbx/command_line/distance_least_squares.py' adding 'iotbx/command_line/dtrek.to_cns.py' adding 'iotbx/command_line/effective_resolution.py' adding 'iotbx/command_line/emma.py' adding 'iotbx/command_line/explore_metric_symmetry.py' adding 'iotbx/command_line/export_scalepack_unmerged.py' adding 'iotbx/command_line/file_reader.py' adding 'iotbx/command_line/flip_symmetric_amino_acids.py' adding 'iotbx/command_line/french_wilson.py' adding 'iotbx/command_line/get_pubmed_citation.py' adding 'iotbx/command_line/lattice_symmetry.py' adding 'iotbx/command_line/merging_statistics.py' adding 'iotbx/command_line/mtrix_reconstruction.py' adding 'iotbx/command_line/mtz.dump.py' adding 'iotbx/command_line/mtz_as_cif.py' adding 'iotbx/command_line/patterson_map.py' adding 'iotbx/command_line/pdb.as_xray_structure.py' adding 'iotbx/command_line/pdb.b_factor_stats.py' adding 'iotbx/command_line/pdb.box_around_molecule.py' adding 'iotbx/command_line/pdb.hierarchy.py' adding 'iotbx/command_line/pdb.insert_scale_records.py' adding 'iotbx/command_line/pdb.join_fragment_files.py' adding 'iotbx/command_line/pdb.link_as_geometry_restraints_edits.py' adding 'iotbx/command_line/pdb.print_sequence.py' adding 'iotbx/command_line/pdb.superpose_atoms_by_name.py' adding 'iotbx/command_line/pdb.superpose_centers_of_mass.py' adding 'iotbx/command_line/pdb_add_conformations.py' adding 'iotbx/command_line/pdb_as_cif.py' adding 'iotbx/command_line/pdb_as_fasta.py' adding 'iotbx/command_line/pdb_cif_conversion.py' adding 'iotbx/command_line/pdb_get_citation.py' adding 'iotbx/command_line/pdb_labels_comparison.py' adding 'iotbx/command_line/pdb_labels_diff.py' adding 'iotbx/command_line/pdb_remediator.py' adding 'iotbx/command_line/pdb_show_connectivity.py' adding 'iotbx/command_line/pdb_split_models.py' adding 'iotbx/command_line/phil.py' adding 'iotbx/command_line/poscar_as_xray_structure.py' adding 'iotbx/command_line/r_free_flags_accumulation.py' adding 'iotbx/command_line/r_free_flags_as_cns.py' adding 'iotbx/command_line/r_free_flags_completion_simple.py' adding 'iotbx/command_line/reflection_file_converter.py' adding 'iotbx/command_line/reflection_file_editor.py' adding 'iotbx/command_line/reflection_file_reader.py' adding 'iotbx/command_line/reflection_statistics.py' adding 'iotbx/command_line/reindex.py' adding 'iotbx/command_line/shelx.as_cif.py' adding 'iotbx/command_line/shelx.as_xray_structure.py' adding 'iotbx/command_line/shelx.dump_as_python.py' adding 'iotbx/command_line/show_distances.py' adding 'iotbx/command_line/show_systematic_absences.py' adding 'iotbx/command_line/simple_map_coefficients.py' adding 'iotbx/command_line/sort_atoms.py' adding 'iotbx/command_line/split_data_cif.py' adding 'iotbx/command_line/symmetry_search.py' adding 'iotbx/command_line/unique_with_biomt.py' adding 'iotbx/command_line/xplor.map.show_summary.py' adding 'iotbx/data_manager/__init__.py' adding 'iotbx/data_manager/common.py' adding 'iotbx/data_manager/map_coefficients.py' adding 'iotbx/data_manager/miller_array.py' adding 'iotbx/data_manager/model.py' adding 'iotbx/data_manager/ncs_spec.py' adding 'iotbx/data_manager/phil.py' adding 'iotbx/data_manager/real_map.py' adding 'iotbx/data_manager/restraint.py' adding 'iotbx/data_manager/sequence.py' adding 'iotbx/detectors/__init__.py' adding 'iotbx/detectors/active_area_filter.py' adding 'iotbx/detectors/adsc.py' adding 'iotbx/detectors/adsc_minicbf.py' adding 'iotbx/detectors/adsc_module.py' adding 'iotbx/detectors/beam_center_convention.py' adding 'iotbx/detectors/bruker.py' adding 'iotbx/detectors/cbf.py' adding 'iotbx/detectors/cspad_detector_formats.py' adding 'iotbx/detectors/detectorbase.py' adding 'iotbx/detectors/dtrek.py' adding 'iotbx/detectors/edf.py' adding 'iotbx/detectors/eiger.py' adding 'iotbx/detectors/eiger_minicbf.py' adding 'iotbx/detectors/generic_detector.py' adding 'iotbx/detectors/hamamatsu.py' adding 'iotbx/detectors/image_from_http_request.py' adding 'iotbx/detectors/macscience.py' adding 'iotbx/detectors/mar.py' adding 'iotbx/detectors/marIP.py' adding 'iotbx/detectors/noir.py' adding 'iotbx/detectors/npy.py' adding 'iotbx/detectors/pilatus_minicbf.py' adding 'iotbx/detectors/pilatus_slice.py' adding 'iotbx/detectors/raxis.py' adding 'iotbx/detectors/raxis_nonsquare.py' adding 'iotbx/detectors/raxisbase.py' adding 'iotbx/detectors/saturn.py' adding 'iotbx/detectors/test_mar.py' adding 'iotbx/detectors/test_raxis2.py' adding 'iotbx/detectors/tst_adsc.py' adding 'iotbx/detectors/tst_cbf_comp_read_meth.py' adding 'iotbx/detectors/tst_debug_write.py' adding 'iotbx/detectors/tst_detectors.py' adding 'iotbx/detectors/tst_py_cbf.py' adding 'iotbx/detectors/url_support.py' adding 'iotbx/detectors/context/__init__.py' adding 'iotbx/detectors/context/camera_convention.py' adding 'iotbx/detectors/context/config_detector.py' adding 'iotbx/detectors/context/endstation.py' adding 'iotbx/detectors/context/endstation_max_iv_trial.py' adding 'iotbx/detectors/context/spot_xy_convention.py' adding 'iotbx/detectors/util/__init__.py' adding 'iotbx/detectors/util/filters.py' adding 'iotbx/dsn6/__init__.py' adding 'iotbx/dsn6/tst.py' adding 'iotbx/dtrek/__init__.py' adding 'iotbx/dtrek/crystal_symmetry_from_ref.py' adding 'iotbx/dtrek/dtrek_symmetry_dict.py' adding 'iotbx/dtrek/reflnlist_reader.py' adding 'iotbx/examples/__init__.py' adding 'iotbx/examples/direct_methods_light.py' adding 'iotbx/examples/libtbx_phil_examples.py' adding 'iotbx/examples/mtz_convert_free_to_work.py' adding 'iotbx/examples/mtz_free_flipper.py' adding 'iotbx/examples/pdb_hierarchy.py' adding 'iotbx/examples/pdb_shake.py' adding 'iotbx/examples/pdb_split_chains.py' adding 'iotbx/examples/pdb_symmetry_copies.py' adding 'iotbx/examples/pdb_tardy_conf_sampling_simple.py' adding 'iotbx/examples/pdb_to_map_simple.py' adding 'iotbx/examples/pdbx_mmcif_tutorial.py' adding 'iotbx/examples/prepare_model_for_rsr.py' adding 'iotbx/examples/recalculate_phenix_refine_r_factors.py' adding 'iotbx/examples/shelx_latt_sym_to_space_group_symbol.py' adding 'iotbx/examples/tst_mtz_free_flipper.py' adding 'iotbx/examples/pdb_truncate_to_ala/__init__.py' adding 'iotbx/examples/pdb_truncate_to_ala/tst.py' adding 'iotbx/examples/pdb_truncate_to_ala/v0_getting_started.py' adding 'iotbx/examples/pdb_truncate_to_ala/v1_loop_over_atoms.py' adding 'iotbx/examples/pdb_truncate_to_ala/v2_simple.py' adding 'iotbx/examples/pdb_truncate_to_ala/v3_better.py' adding 'iotbx/examples/pdb_truncate_to_ala/v4_with_bells_and_whistles.py' adding 'iotbx/fullprof/__init__.py' adding 'iotbx/fullprof/read_pcr.py' adding 'iotbx/fullprof/write_pcr.py' adding 'iotbx/gui_tools/__init__.py' adding 'iotbx/gui_tools/cif_conversions.py' adding 'iotbx/gui_tools/import_data_and_flags.py' adding 'iotbx/gui_tools/models.py' adding 'iotbx/gui_tools/reflections.py' adding 'iotbx/gui_tools/tst.py' adding 'iotbx/kriber/__init__.py' adding 'iotbx/kriber/strudat.py' adding 'iotbx/kriber/tst_strudat.py' adding 'iotbx/mrcfile/__init__.py' adding 'iotbx/mrcfile/crystal_symmetry_from_ccp4_map.py' adding 'iotbx/mtz/__init__.py' adding 'iotbx/mtz/crystal_symmetry_from_mtz.py' adding 'iotbx/mtz/extract_from_symmetry_lib.py' adding 'iotbx/mtz/tst.py' adding 'iotbx/mtz/tst_dano.py' adding 'iotbx/mtz/tst_ext.py' adding 'iotbx/mtz/tst_extract_from_symmetry_lib.py' adding 'iotbx/mtz/tst_miller_dict.py' adding 'iotbx/mtz/tst_unmerged.py' adding 'iotbx/ncs/__init__.py' adding 'iotbx/pdb/__init__.py' adding 'iotbx/pdb/aa_utils.py' adding 'iotbx/pdb/amino_acid_codes.py' adding 'iotbx/pdb/atom_name_interpretation.py' adding 'iotbx/pdb/atom_selection.py' adding 'iotbx/pdb/cryst1_interpretation.py' adding 'iotbx/pdb/crystal_symmetry_from_pdb.py' adding 'iotbx/pdb/download.py' adding 'iotbx/pdb/experiment_type.py' adding 'iotbx/pdb/extract_rfactors_resolutions_sigma.py' adding 'iotbx/pdb/fetch.py' adding 'iotbx/pdb/forward_compatible_pdb_cif_conversion.py' adding 'iotbx/pdb/hierarchy.py' adding 'iotbx/pdb/hybrid_36.py' adding 'iotbx/pdb/misc_records_output.py' adding 'iotbx/pdb/mmcif.py' adding 'iotbx/pdb/modified_aa_names.py' adding 'iotbx/pdb/modified_rna_dna_names.py' adding 'iotbx/pdb/nucleic_acid_codes.py' adding 'iotbx/pdb/pdb_v3_cif_conversion.py' adding 'iotbx/pdb/pdbe.py' adding 'iotbx/pdb/rcsb.py' adding 'iotbx/pdb/records.py' adding 'iotbx/pdb/remark_290_interpretation.py' adding 'iotbx/pdb/remark_2_interpretation.py' adding 'iotbx/pdb/remark_3_interpretation.py' adding 'iotbx/pdb/rna_dna_detection.py' adding 'iotbx/pdb/secondary_structure.py' adding 'iotbx/pdb/tst_atom_name_interpretation.py' adding 'iotbx/pdb/tst_atom_selection.py' adding 'iotbx/pdb/tst_atom_selection_string.py' adding 'iotbx/pdb/tst_ext.py' adding 'iotbx/pdb/tst_extract_rfactors_resolutions_sigma.py' adding 'iotbx/pdb/tst_hierarchy.py' adding 'iotbx/pdb/tst_hierarchy_atom_sort.py' adding 'iotbx/pdb/tst_hierarchy_flip_symmetric.py' adding 'iotbx/pdb/tst_hierarchy_flip_symmetric_2.py' adding 'iotbx/pdb/tst_mmcif.py' adding 'iotbx/pdb/tst_mmcif_hierarchy.py' adding 'iotbx/pdb/tst_mmcif_hierarchy_2.py' adding 'iotbx/pdb/tst_pdb.py' adding 'iotbx/pdb/tst_read_mtrix_records_from_cif.py' adding 'iotbx/pdb/tst_rna_dna_atom_names.py' adding 'iotbx/pdb/tst_secondary_structure.py' adding 'iotbx/pdb/tst_secondary_structure_2.py' adding 'iotbx/pdb/tst_tls.py' adding 'iotbx/pdb/tst_utils.py' adding 'iotbx/pdb/utils.py' adding 'iotbx/pdb/web_service_api.py' adding 'iotbx/pdb/xray_structure.py' adding 'iotbx/pdb/remediation/__init__.py' adding 'iotbx/pdb/remediation/remediator.py' adding 'iotbx/pdb/remediation/tst_remediator.py' adding 'iotbx/programs/__init__.py' adding 'iotbx/programs/box_around_molecule.py' adding 'iotbx/programs/split_data_cif.py' adding 'iotbx/programs/unique_with_biomt.py' adding 'iotbx/regression/__init__.py' adding 'iotbx/regression/tst_add_conformations.py' adding 'iotbx/regression/tst_all_chain_ids.py' adding 'iotbx/regression/tst_atom_selections_10k.py' adding 'iotbx/regression/tst_bioinformatics.py' adding 'iotbx/regression/tst_box_around_molecule.py' adding 'iotbx/regression/tst_cif_1.py' adding 'iotbx/regression/tst_cif_as_pdb_1atom.py' adding 'iotbx/regression/tst_cli_parser.py' adding 'iotbx/regression/tst_crystal_symmetry_from_any.py' adding 'iotbx/regression/tst_csv_utils.py' adding 'iotbx/regression/tst_data_manager.py' adding 'iotbx/regression/tst_data_plots.py' adding 'iotbx/regression/tst_examples.py' adding 'iotbx/regression/tst_export_scalepack_unmerged.py' adding 'iotbx/regression/tst_extract_xtal_data.py' adding 'iotbx/regression/tst_fetch.py' adding 'iotbx/regression/tst_file_reader.py' adding 'iotbx/regression/tst_generate_n_char_string.py' adding 'iotbx/regression/tst_group_rounding.py' adding 'iotbx/regression/tst_hierarchy_altlocs.py' adding 'iotbx/regression/tst_hierarchy_copy_select.py' adding 'iotbx/regression/tst_hierarchy_forward_compatible_pdb.py' adding 'iotbx/regression/tst_hierarchy_id_str.py' adding 'iotbx/regression/tst_hierarchy_long_chain_ids_1.py' adding 'iotbx/regression/tst_hierarchy_long_resname_1.py' adding 'iotbx/regression/tst_hierarchy_long_resname_2.py' adding 'iotbx/regression/tst_hierarchy_long_resname_3.py' adding 'iotbx/regression/tst_hierarchy_long_resname_4.py' adding 'iotbx/regression/tst_hierarchy_merge_atoms_at_end_to_residues.py' adding 'iotbx/regression/tst_hierarchy_occupancies_rounding.py' adding 'iotbx/regression/tst_hierarchy_pdb_v3.py' adding 'iotbx/regression/tst_lattice_symmetry.py' adding 'iotbx/regression/tst_map_manager.py' adding 'iotbx/regression/tst_map_manager_2.py' adding 'iotbx/regression/tst_map_manager_wrapping.py' adding 'iotbx/regression/tst_map_model_manager.py' adding 'iotbx/regression/tst_map_model_manager_2.py' adding 'iotbx/regression/tst_map_model_manager_3.py' adding 'iotbx/regression/tst_map_model_manager_4.py' adding 'iotbx/regression/tst_map_model_manager_9_remove_origin_shift_and_unit_cell_crystal_symmetry.py' adding 'iotbx/regression/tst_map_model_manager_9_remove_origin_shift_and_unit_cell_crystal_symmetry_cif.py' adding 'iotbx/regression/tst_map_model_manager_call_consistency.py' adding 'iotbx/regression/tst_map_model_manager_cif.py' adding 'iotbx/regression/tst_map_model_manager_external_sharpening_7.py' adding 'iotbx/regression/tst_map_model_manager_half_map_sharpening_6.py' adding 'iotbx/regression/tst_map_model_manager_local_resolution_10.py' adding 'iotbx/regression/tst_map_model_manager_model_sharpening_5.py' adding 'iotbx/regression/tst_map_model_manager_model_sharpening_5_cif.py' adding 'iotbx/regression/tst_map_model_manager_tls_from_map_8.py' adding 'iotbx/regression/tst_map_tools.py' adding 'iotbx/regression/tst_merging_statistics.py' adding 'iotbx/regression/tst_miller_sort_asu.py' adding 'iotbx/regression/tst_mmcif_input.py' adding 'iotbx/regression/tst_mmcif_multimodel.py' adding 'iotbx/regression/tst_mmcif_segids.py' adding 'iotbx/regression/tst_mmcif_to_from_hierarchy.py' adding 'iotbx/regression/tst_mrc_io.py' adding 'iotbx/regression/tst_mtz_as_cif.py' adding 'iotbx/regression/tst_patterson.py' adding 'iotbx/regression/tst_pdb_as_cif.py' adding 'iotbx/regression/tst_pdb_as_fasta.py' adding 'iotbx/regression/tst_pdb_cif_cells.py' adding 'iotbx/regression/tst_pdb_cif_inputs.py' adding 'iotbx/regression/tst_pdb_link_records.py' adding 'iotbx/regression/tst_pdbx_mmcif_tutorial.py' adding 'iotbx/regression/tst_phases.py' adding 'iotbx/regression/tst_phil.py' adding 'iotbx/regression/tst_poscar.py' adding 'iotbx/regression/tst_reflection_file_editor.py' adding 'iotbx/regression/tst_reflection_file_reader.py' adding 'iotbx/regression/tst_reflection_file_utils.py' adding 'iotbx/regression/tst_reflection_statistics.py' adding 'iotbx/regression/tst_reindex.py' adding 'iotbx/regression/tst_restraints_merge.py' adding 'iotbx/regression/tst_selected_hierarchy_flip.py' adding 'iotbx/regression/tst_show_systematic_absences.py' adding 'iotbx/regression/tst_simple_map_coefficients.py' adding 'iotbx/regression/tst_simple_parser.py' adding 'iotbx/regression/tst_sort_atoms.py' adding 'iotbx/regression/tst_split_data_cif.py' adding 'iotbx/regression/tst_split_models.py' adding 'iotbx/regression/tst_symmetry.py' adding 'iotbx/regression/tst_wildcard.py' adding 'iotbx/regression/tst_xray_scale.py' adding 'iotbx/regression/utils.py' adding 'iotbx/regression/ncs/__init__.py' adding 'iotbx/regression/ncs/tst_mmcif_biomt_reduction_output.py' adding 'iotbx/regression/ncs/tst_mtrix_biomt_cmdl.py' adding 'iotbx/regression/ncs/tst_ncs.py' adding 'iotbx/regression/ncs/tst_ncs_groups_preprocessing.py' adding 'iotbx/regression/ncs/tst_ncs_input.py' adding 'iotbx/regression/ncs/tst_ncs_reordered_chains.py' adding 'iotbx/regression/ncs/tst_ncs_search_broken_chain.py' adding 'iotbx/regression/ncs/tst_ncs_search_ligs.py' adding 'iotbx/regression/ncs/tst_ncs_search_shortcut_1.py' adding 'iotbx/regression/ncs/tst_ncs_user_selections.py' adding 'iotbx/regression/ncs/tst_ncs_without_validation.py' adding 'iotbx/scalepack/__init__.py' adding 'iotbx/scalepack/crystal_symmetry_from_hkl.py' adding 'iotbx/scalepack/merge.py' adding 'iotbx/scalepack/no_merge_original_index.py' adding 'iotbx/scalepack/space_group_dictionary.py' adding 'iotbx/scalepack/tst_merge.py' adding 'iotbx/scalepack/tst_no_merge_original_index.py' adding 'iotbx/shelx/__init__.py' adding 'iotbx/shelx/crystal_symmetry_from_ins.py' adding 'iotbx/shelx/errors.py' adding 'iotbx/shelx/fcf.py' adding 'iotbx/shelx/fvar_encoding.py' adding 'iotbx/shelx/hklf.py' adding 'iotbx/shelx/lexer.py' adding 'iotbx/shelx/parsers.py' adding 'iotbx/shelx/tokens.py' adding 'iotbx/shelx/tst_fvar_encoding.py' adding 'iotbx/shelx/tst_hklf.py' adding 'iotbx/shelx/tst_lex_parse_build.py' adding 'iotbx/shelx/tst_writer.py' adding 'iotbx/shelx/write_ins.py' adding 'iotbx/shelx/writer.py' adding 'iotbx/solve/__init__.py' adding 'iotbx/solve/crystal_symmetry_from_inp.py' adding 'iotbx/solve/fpfm_reader.py' adding 'iotbx/xds/__init__.py' adding 'iotbx/xds/blank_cbf.py' adding 'iotbx/xds/correction.py' adding 'iotbx/xds/crystal_symmetry_from_hkl.py' adding 'iotbx/xds/gain_cbf.py' adding 'iotbx/xds/geometry.py' adding 'iotbx/xds/integrate_hkl.py' adding 'iotbx/xds/read_ascii.py' adding 'iotbx/xds/spot_xds.py' adding 'iotbx/xds/xds_cbf.py' adding 'iotbx/xds/xds_inp.py' adding 'iotbx/xds/xparm.py' adding 'iotbx/xplor/__init__.py' adding 'iotbx/xplor/crystal_symmetry_from_map.py' adding 'iotbx/xplor/ext.py' adding 'iotbx/xplor/map.py' adding 'iotbx/xplor/tst_xplormap.py' adding 'libtbx/__init__.py' adding 'libtbx/assert_utils.py' adding 'libtbx/binary_search.py' adding 'libtbx/callbacks.py' adding 'libtbx/citations.py' adding 'libtbx/clear_paths.py' adding 'libtbx/cli.py' adding 'libtbx/cluster.py' adding 'libtbx/clusterTests.py' adding 'libtbx/code_analysis.py' adding 'libtbx/complex_math.py' adding 'libtbx/configure.py' adding 'libtbx/console_utils.py' adding 'libtbx/containers.py' adding 'libtbx/cpp_function_name.py' adding 'libtbx/crossmingw.py' adding 'libtbx/dlite.py' adding 'libtbx/easy_mp.py' adding 'libtbx/easy_pickle.py' adding 'libtbx/easy_profile.py' adding 'libtbx/easy_run.py' adding 'libtbx/env_config.py' adding 'libtbx/file_clutter.py' adding 'libtbx/find_reference_cycles.py' adding 'libtbx/forward_compatibility.py' adding 'libtbx/introspection.py' adding 'libtbx/libtbx_refresh.py' adding 'libtbx/load_env.py' adding 'libtbx/log.py' adding 'libtbx/math_utils.py' adding 'libtbx/metric_prefixes.py' adding 'libtbx/mpi4py.py' adding 'libtbx/object_oriented_patterns.py' adding 'libtbx/objgraph.py' adding 'libtbx/option_parser.py' adding 'libtbx/path.py' adding 'libtbx/pkg_utils.py' adding 'libtbx/program_template.py' adding 'libtbx/progress.py' adding 'libtbx/pyframe.py' adding 'libtbx/pyplot.py' adding 'libtbx/python_code_parsing.py' adding 'libtbx/resource_monitor.py' adding 'libtbx/run_tests.py' adding 'libtbx/runtime_utils.py' adding 'libtbx/simplexml.py' adding 'libtbx/smart_open.py' adding 'libtbx/start_print_trace.py' adding 'libtbx/str_utils.py' adding 'libtbx/subprocess_with_fixes.py' adding 'libtbx/table_utils.py' adding 'libtbx/thread_utils.py' adding 'libtbx/topological_sort.py' adding 'libtbx/try_hello_world_c.py' adding 'libtbx/tst_add_docstrings_with_ai.py' adding 'libtbx/tst_binary_search.py' adding 'libtbx/tst_citations.py' adding 'libtbx/tst_containers.py' adding 'libtbx/tst_dlite.py' adding 'libtbx/tst_easy_mp.py' adding 'libtbx/tst_easy_mp_multicore.py' adding 'libtbx/tst_easy_mp_state.py' adding 'libtbx/tst_easy_pickle.py' adding 'libtbx/tst_find_unused_imports.py' adding 'libtbx/tst_fully_buffered_timeout.py' adding 'libtbx/tst_mahalanobis.py' adding 'libtbx/tst_math_utils.py' adding 'libtbx/tst_object_oriented_patterns.py' adding 'libtbx/tst_path.py' adding 'libtbx/tst_program_template.py' adding 'libtbx/tst_python_code_parsing.py' adding 'libtbx/tst_representation.py' adding 'libtbx/tst_run_tests_parallel_retry.py' adding 'libtbx/tst_run_tests_parallel_unique_dirs.py' adding 'libtbx/tst_runtime_utils.py' adding 'libtbx/tst_scheduling.py' adding 'libtbx/tst_str_utils.py' adding 'libtbx/tst_thread_utils.py' adding 'libtbx/tst_topological_sort.py' adding 'libtbx/tst_utils.py' adding 'libtbx/tst_version.py' adding 'libtbx/tst_word_index_generator.py' adding 'libtbx/tst_xmlrpc_utils.py' adding 'libtbx/utils.py' adding 'libtbx/version.py' adding 'libtbx/wingide.py' adding 'libtbx/word_index_generator.py' adding 'libtbx/xmlrpc_server_example.py' adding 'libtbx/xmlrpc_utils.py' adding 'libtbx/auto_build/__init__.py' adding 'libtbx/auto_build/bootstrap.py' adding 'libtbx/auto_build/create_cctbx_bundle_for_installer.py' adding 'libtbx/auto_build/create_installer.py' adding 'libtbx/auto_build/create_mac_app.py' adding 'libtbx/auto_build/create_mac_pkg.py' adding 'libtbx/auto_build/create_windows_exe.py' adding 'libtbx/auto_build/create_windows_installer.py' adding 'libtbx/auto_build/install_base_packages.py' adding 'libtbx/auto_build/install_conda.py' adding 'libtbx/auto_build/install_distribution.py' adding 'libtbx/auto_build/installer_utils.py' adding 'libtbx/auto_build/make_bundle.py' adding 'libtbx/auto_build/package_defs.py' adding 'libtbx/auto_build/plus_installer.py' adding 'libtbx/auto_build/regenerate_module_files.py' adding 'libtbx/auto_build/rpath.py' adding 'libtbx/auto_build/setup_installer.py' adding 'libtbx/auto_build/write_gui_dispatcher_include.py' adding 'libtbx/bundle/__init__.py' adding 'libtbx/bundle/copy_all.py' adding 'libtbx/bundle/copy_build_libtbx.py' adding 'libtbx/bundle/copy_runtime_sources.py' adding 'libtbx/bundle/install_bat.py' adding 'libtbx/bundle/install_csh.py' adding 'libtbx/bundle/utils.py' adding 'libtbx/command_line/__init__.py' adding 'libtbx/command_line/add_docstrings_with_ai.py' adding 'libtbx/command_line/analyse_code_comments.py' adding 'libtbx/command_line/any2unix.py' adding 'libtbx/command_line/assert_line_count.py' adding 'libtbx/command_line/assert_not_show_diff.py' adding 'libtbx/command_line/assert_stdin.py' adding 'libtbx/command_line/assert_stdin_contains_strings.py' adding 'libtbx/command_line/assert_stdin_ends_with.py' adding 'libtbx/command_line/bootstrap.py' adding 'libtbx/command_line/bundle_as_exe.py' adding 'libtbx/command_line/cctbx_chunk.py' adding 'libtbx/command_line/check_libcpp.py' adding 'libtbx/command_line/clean_clutter.py' adding 'libtbx/command_line/clear_paths.py' adding 'libtbx/command_line/create_cctbx_bundle_for_installer.py' adding 'libtbx/command_line/create_install_script_bat.py' adding 'libtbx/command_line/create_installer.py' adding 'libtbx/command_line/create_mac_app.py' adding 'libtbx/command_line/create_selfx.py' adding 'libtbx/command_line/create_unzipsfx.py' adding 'libtbx/command_line/create_windows_exe.py' adding 'libtbx/command_line/dtrace.py' adding 'libtbx/command_line/easy_qsub.py' adding 'libtbx/command_line/env_run.py' adding 'libtbx/command_line/epydoc_run.py' adding 'libtbx/command_line/extract_code_from_txt.py' adding 'libtbx/command_line/find_clutter.py' adding 'libtbx/command_line/find_files.py' adding 'libtbx/command_line/find_in_repositories.py' adding 'libtbx/command_line/find_old_style_classes.py' adding 'libtbx/command_line/find_pdb_mmcif_problems.py' adding 'libtbx/command_line/find_reserved_names.py' adding 'libtbx/command_line/find_under_build.py' adding 'libtbx/command_line/find_untested.py' adding 'libtbx/command_line/find_unused_imports.py' adding 'libtbx/command_line/find_unused_imports_crude.py' adding 'libtbx/command_line/git_avoid_merges.py' adding 'libtbx/command_line/help.py' adding 'libtbx/command_line/import_all_ext.py' adding 'libtbx/command_line/import_all_python.py' adding 'libtbx/command_line/install.py' adding 'libtbx/command_line/install_conda.py' adding 'libtbx/command_line/ipython_shell_start.py' adding 'libtbx/command_line/line_count.py' adding 'libtbx/command_line/list_files.py' adding 'libtbx/command_line/list_modules.py' adding 'libtbx/command_line/list_source_files_sorted_by_size.py' adding 'libtbx/command_line/make_dist.py' adding 'libtbx/command_line/make_sphinx_html.py' adding 'libtbx/command_line/nequal.py' adding 'libtbx/command_line/parallel_simple.py' adding 'libtbx/command_line/path_utility.py' adding 'libtbx/command_line/phil.py' adding 'libtbx/command_line/prime_factors_of.py' adding 'libtbx/command_line/printenv.py' adding 'libtbx/command_line/py_compile_all.py' adding 'libtbx/command_line/raise_exception_for_testing.py' adding 'libtbx/command_line/reindent.py' adding 'libtbx/command_line/remote_processing.py' adding 'libtbx/command_line/remove_tree.py' adding 'libtbx/command_line/remove_unused_imports.py' adding 'libtbx/command_line/resource_monitor_plot.py' adding 'libtbx/command_line/run_pickled_function.py' adding 'libtbx/command_line/run_tests_parallel.py' adding 'libtbx/command_line/scons.py' adding 'libtbx/command_line/seconds_since_the_epoch.py' adding 'libtbx/command_line/sge_available_slots.py' adding 'libtbx/command_line/sge_qstat_counts.py' adding 'libtbx/command_line/show_all_on_path.py' adding 'libtbx/command_line/show_bin_path.py' adding 'libtbx/command_line/show_build_options.py' adding 'libtbx/command_line/show_build_path.py' adding 'libtbx/command_line/show_but_no_repr.py' adding 'libtbx/command_line/show_commands.py' adding 'libtbx/command_line/show_date_and_time.py' adding 'libtbx/command_line/show_dist_paths.py' adding 'libtbx/command_line/show_env.py' adding 'libtbx/command_line/show_environ_usage.py' adding 'libtbx/command_line/show_full_command_path.py' adding 'libtbx/command_line/show_host_and_user.py' adding 'libtbx/command_line/show_include_paths.py' adding 'libtbx/command_line/show_lib_path.py' adding 'libtbx/command_line/show_module_dependencies.py' adding 'libtbx/command_line/show_number_of_processors.py' adding 'libtbx/command_line/show_numeric_version.py' adding 'libtbx/command_line/show_numpy_version.py' adding 'libtbx/command_line/show_python_dependencies.py' adding 'libtbx/command_line/show_python_sys_executable.py' adding 'libtbx/command_line/show_pythonpath.py' adding 'libtbx/command_line/show_repository_paths.py' adding 'libtbx/command_line/show_tests.py' adding 'libtbx/command_line/show_variable_names.py' adding 'libtbx/command_line/sphinx_build.py' adding 'libtbx/command_line/start_binary_bundle.py' adding 'libtbx/command_line/start_process.py' adding 'libtbx/command_line/wait_for_file.py' adding 'libtbx/development/__init__.py' adding 'libtbx/development/except_Exception.py' adding 'libtbx/development/timers.py' adding 'libtbx/development/xcode_build_phase.py' adding 'libtbx/langchain/__init__.py' adding 'libtbx/langchain/phenix_knowledge.py' adding 'libtbx/langchain/run_build_db.py' adding 'libtbx/langchain/run_inspect_db.py' adding 'libtbx/langchain/run_query_docs.py' adding 'libtbx/langchain/agent/__init__.py' adding 'libtbx/langchain/agent/advice_preprocessor.py' adding 'libtbx/langchain/agent/api_client.py' adding 'libtbx/langchain/agent/best_files_tracker.py' adding 'libtbx/langchain/agent/command_builder.py' adding 'libtbx/langchain/agent/command_postprocessor.py' adding 'libtbx/langchain/agent/config_loader.py' adding 'libtbx/langchain/agent/contract.py' adding 'libtbx/langchain/agent/directive_extractor.py' adding 'libtbx/langchain/agent/directive_validator.py' adding 'libtbx/langchain/agent/display_data_model.py' adding 'libtbx/langchain/agent/docs_tools.py' adding 'libtbx/langchain/agent/dry_run_manager.py' adding 'libtbx/langchain/agent/error_analyzer.py' adding 'libtbx/langchain/agent/error_classifier.py' adding 'libtbx/langchain/agent/event_formatter.py' adding 'libtbx/langchain/agent/event_log.py' adding 'libtbx/langchain/agent/failure_diagnoser.py' adding 'libtbx/langchain/agent/file_metadata.py' adding 'libtbx/langchain/agent/file_utils.py' adding 'libtbx/langchain/agent/format_validation.py' adding 'libtbx/langchain/agent/gate_evaluator.py' adding 'libtbx/langchain/agent/generate_logic_doc.py' adding 'libtbx/langchain/agent/generate_safety_docs.py' adding 'libtbx/langchain/agent/graph.py' adding 'libtbx/langchain/agent/graph_nodes.py' adding 'libtbx/langchain/agent/graph_state.py' adding 'libtbx/langchain/agent/hypothesis_evaluator.py' adding 'libtbx/langchain/agent/intent_classifier.py' adding 'libtbx/langchain/agent/kb_tags.py' adding 'libtbx/langchain/agent/log_section_extractor.py' adding 'libtbx/langchain/agent/memory.py' adding 'libtbx/langchain/agent/metric_evaluator.py' adding 'libtbx/langchain/agent/metrics_analyzer.py' adding 'libtbx/langchain/agent/nl_to_phil.py' adding 'libtbx/langchain/agent/pattern_manager.py' adding 'libtbx/langchain/agent/perceive_checks.py' adding 'libtbx/langchain/agent/phenix_utils.py' adding 'libtbx/langchain/agent/phil_validator.py' adding 'libtbx/langchain/agent/placement_checker.py' adding 'libtbx/langchain/agent/plan_generator.py' adding 'libtbx/langchain/agent/planner.py' adding 'libtbx/langchain/agent/program_registry.py' adding 'libtbx/langchain/agent/program_validator.py' adding 'libtbx/langchain/agent/rate_limit_handler.py' adding 'libtbx/langchain/agent/rules_selector.py' adding 'libtbx/langchain/agent/sanity_checker.py' adding 'libtbx/langchain/agent/session.py' adding 'libtbx/langchain/agent/session_tools.py' adding 'libtbx/langchain/agent/strategy_memory.py' adding 'libtbx/langchain/agent/structure_model.py' adding 'libtbx/langchain/agent/template_builder.py' adding 'libtbx/langchain/agent/thinking_agent.py' adding 'libtbx/langchain/agent/transport.py' adding 'libtbx/langchain/agent/tst_agent_enhancements.py' adding 'libtbx/langchain/agent/utils.py' adding 'libtbx/langchain/agent/validation_history.py' adding 'libtbx/langchain/agent/validation_inspector.py' adding 'libtbx/langchain/agent/workflow_engine.py' adding 'libtbx/langchain/agent/workflow_state.py' adding 'libtbx/langchain/agent/yaml_tools.py' adding 'libtbx/langchain/analysis/__init__.py' adding 'libtbx/langchain/analysis/agent_session_analyzer.py' adding 'libtbx/langchain/analysis/analyzer.py' adding 'libtbx/langchain/analysis/log_info.py' adding 'libtbx/langchain/analysis/state_extractor.py' adding 'libtbx/langchain/analysis/summarizer.py' adding 'libtbx/langchain/commands/__init__.py' adding 'libtbx/langchain/commands/base.py' adding 'libtbx/langchain/core/__init__.py' adding 'libtbx/langchain/core/llm.py' adding 'libtbx/langchain/core/types.py' adding 'libtbx/langchain/examples/__init__.py' adding 'libtbx/langchain/knowledge/__init__.py' adding 'libtbx/langchain/knowledge/api_schema.py' adding 'libtbx/langchain/knowledge/explanation_prompts.py' adding 'libtbx/langchain/knowledge/html_report_template.py' adding 'libtbx/langchain/knowledge/kb_loader.py' adding 'libtbx/langchain/knowledge/metric_patterns.py' adding 'libtbx/langchain/knowledge/phenix_programs.py' adding 'libtbx/langchain/knowledge/plan_schema.py' adding 'libtbx/langchain/knowledge/plan_template_loader.py' adding 'libtbx/langchain/knowledge/program_registration.py' adding 'libtbx/langchain/knowledge/prompts.py' adding 'libtbx/langchain/knowledge/prompts_hybrid.py' adding 'libtbx/langchain/knowledge/summary_display.py' adding 'libtbx/langchain/knowledge/thinking_prompts.py' adding 'libtbx/langchain/knowledge/yaml_loader.py' adding 'libtbx/langchain/rag/__init__.py' adding 'libtbx/langchain/rag/document_loader.py' adding 'libtbx/langchain/rag/retriever.py' adding 'libtbx/langchain/rag/vector_store.py' adding 'libtbx/langchain/strategies/__init__.py' adding 'libtbx/langchain/strategies/base.py' adding 'libtbx/langchain/tests/__init__.py' adding 'libtbx/langchain/tests/analyze_tutorial_runs.py' adding 'libtbx/langchain/tests/audit_phase_rename.py' adding 'libtbx/langchain/tests/run_all_tests.py' adding 'libtbx/langchain/tests/test_api_keys.py' adding 'libtbx/langchain/tests/tst_abort_message_all_stops.py' adding 'libtbx/langchain/tests/tst_action_item_1.py' adding 'libtbx/langchain/tests/tst_advice_preprocessing.py' adding 'libtbx/langchain/tests/tst_api_schema.py' adding 'libtbx/langchain/tests/tst_audit_fixes.py' adding 'libtbx/langchain/tests/tst_autosol_bugs.py' adding 'libtbx/langchain/tests/tst_backward_compat.py' adding 'libtbx/langchain/tests/tst_best_files_tracker.py' adding 'libtbx/langchain/tests/tst_command_builder.py' adding 'libtbx/langchain/tests/tst_contract_compliance.py' adding 'libtbx/langchain/tests/tst_copies_tracking.py' adding 'libtbx/langchain/tests/tst_decision_flow.py' adding 'libtbx/langchain/tests/tst_diagnosed_failure_stop.py' adding 'libtbx/langchain/tests/tst_directive_extractor.py' adding 'libtbx/langchain/tests/tst_directive_validator.py' adding 'libtbx/langchain/tests/tst_directives_integration.py' adding 'libtbx/langchain/tests/tst_display_data_model.py' adding 'libtbx/langchain/tests/tst_docs_tools.py' adding 'libtbx/langchain/tests/tst_dry_run.py' adding 'libtbx/langchain/tests/tst_error_analyzer.py' adding 'libtbx/langchain/tests/tst_error_classifier.py' adding 'libtbx/langchain/tests/tst_event_formatter_file_categories.py' adding 'libtbx/langchain/tests/tst_event_system.py' adding 'libtbx/langchain/tests/tst_explanation_prompts.py' adding 'libtbx/langchain/tests/tst_fabricated_stop_condition.py' adding 'libtbx/langchain/tests/tst_file_categorization.py' adding 'libtbx/langchain/tests/tst_file_utils.py' adding 'libtbx/langchain/tests/tst_fix_verification.py' adding 'libtbx/langchain/tests/tst_gate_evaluator.py' adding 'libtbx/langchain/tests/tst_halfmap_sigmaa_inventory.py' adding 'libtbx/langchain/tests/tst_hardcoded_cleanup.py' adding 'libtbx/langchain/tests/tst_history_analysis.py' adding 'libtbx/langchain/tests/tst_hypothesis_evaluator.py' adding 'libtbx/langchain/tests/tst_integration.py' adding 'libtbx/langchain/tests/tst_intent_classifier.py' adding 'libtbx/langchain/tests/tst_langchain_tools.py' adding 'libtbx/langchain/tests/tst_log_extractor.py' adding 'libtbx/langchain/tests/tst_metric_patterns.py' adding 'libtbx/langchain/tests/tst_metrics_analyzer.py' adding 'libtbx/langchain/tests/tst_mtz_crosscheck.py' adding 'libtbx/langchain/tests/tst_mtz_phases_session_blocking.py' adding 'libtbx/langchain/tests/tst_n_bugs.py' adding 'libtbx/langchain/tests/tst_new_programs.py' adding 'libtbx/langchain/tests/tst_old_client_compat.py' adding 'libtbx/langchain/tests/tst_pattern_manager.py' adding 'libtbx/langchain/tests/tst_perceive_stop_checks.py' adding 'libtbx/langchain/tests/tst_phase0_static_audit.py' adding 'libtbx/langchain/tests/tst_phase1_contract_gaps.py' adding 'libtbx/langchain/tests/tst_phase2_path_consistency.py' adding 'libtbx/langchain/tests/tst_phase3_bug5.py' adding 'libtbx/langchain/tests/tst_phase3_serialization_symmetry.py' adding 'libtbx/langchain/tests/tst_phase4_history_flags.py' adding 'libtbx/langchain/tests/tst_phase5_error_classification.py' adding 'libtbx/langchain/tests/tst_phase6_category_consumer.py' adding 'libtbx/langchain/tests/tst_phase7_routing_simulation.py' adding 'libtbx/langchain/tests/tst_phase8_command_building.py' adding 'libtbx/langchain/tests/tst_phase9_llm_perturbation.py' adding 'libtbx/langchain/tests/tst_phaser_multimodel.py' adding 'libtbx/langchain/tests/tst_phil_validation.py' adding 'libtbx/langchain/tests/tst_plan_generator.py' adding 'libtbx/langchain/tests/tst_plan_schema.py' adding 'libtbx/langchain/tests/tst_program_registration.py' adding 'libtbx/langchain/tests/tst_sanity_checker.py' adding 'libtbx/langchain/tests/tst_scenario_tracer.py' adding 'libtbx/langchain/tests/tst_session_directives.py' adding 'libtbx/langchain/tests/tst_session_summary.py' adding 'libtbx/langchain/tests/tst_session_tools.py' adding 'libtbx/langchain/tests/tst_shared_code_imports.py' adding 'libtbx/langchain/tests/tst_silent_stop_abort_messages.py' adding 'libtbx/langchain/tests/tst_state_serialization.py' adding 'libtbx/langchain/tests/tst_stop_condition_fix.py' adding 'libtbx/langchain/tests/tst_stop_feedback_api_plan_command.py' adding 'libtbx/langchain/tests/tst_stop_reason_codes.py' adding 'libtbx/langchain/tests/tst_stop_reason_prompt.py' adding 'libtbx/langchain/tests/tst_strategy_memory.py' adding 'libtbx/langchain/tests/tst_structure_model.py' adding 'libtbx/langchain/tests/tst_summary_display.py' adding 'libtbx/langchain/tests/tst_template.py' adding 'libtbx/langchain/tests/tst_thinking_agent.py' adding 'libtbx/langchain/tests/tst_thinking_defense.py' adding 'libtbx/langchain/tests/tst_transport.py' adding 'libtbx/langchain/tests/tst_utils.py' adding 'libtbx/langchain/tests/tst_v112_13_fixes.py' adding 'libtbx/langchain/tests/tst_validate_file_overrides.py' adding 'libtbx/langchain/tests/tst_validation_history.py' adding 'libtbx/langchain/tests/tst_workflow_complete_stop.py' adding 'libtbx/langchain/tests/tst_workflow_state.py' adding 'libtbx/langchain/tests/tst_yaml_config.py' adding 'libtbx/langchain/tests/tst_yaml_tools.py' adding 'libtbx/langchain/tests/integration/__init__.py' adding 'libtbx/langchain/utils/__init__.py' adding 'libtbx/langchain/utils/query.py' adding 'libtbx/langchain/utils/run_utils.py' adding 'libtbx/langchain/utils/text_processing.py' adding 'libtbx/langchain/validation/__init__.py' adding 'libtbx/langchain/validation/base.py' adding 'libtbx/langchain/validation/core_validator.py' adding 'libtbx/langchain/validation/mtz_utils.py' adding 'libtbx/langchain/validation/phenix_refine.py' adding 'libtbx/langchain/validation/registry.py' adding 'libtbx/phil/__init__.py' adding 'libtbx/phil/command_line.py' adding 'libtbx/phil/experimental.py' adding 'libtbx/phil/gui_objects.py' adding 'libtbx/phil/interface.py' adding 'libtbx/phil/parser.py' adding 'libtbx/phil/tokenizer.py' adding 'libtbx/phil/tst.py' adding 'libtbx/phil/tst_experimental.py' adding 'libtbx/phil/tst_interface.py' adding 'libtbx/phil/tst_tokenizer.py' adding 'libtbx/program_utils/__init__.py' adding 'libtbx/program_utils/result.py' adding 'libtbx/program_utils/statistics_info.py' adding 'libtbx/queuing_system_utils/__init__.py' adding 'libtbx/queuing_system_utils/communication.py' adding 'libtbx/queuing_system_utils/generic.py' adding 'libtbx/queuing_system_utils/looping.py' adding 'libtbx/queuing_system_utils/lsf.py' adding 'libtbx/queuing_system_utils/pbs_utils.py' adding 'libtbx/queuing_system_utils/remote.py' adding 'libtbx/queuing_system_utils/scheduling.py' adding 'libtbx/queuing_system_utils/scheduling_helpers.py' adding 'libtbx/queuing_system_utils/sge_utils.py' adding 'libtbx/queuing_system_utils/tst.py' adding 'libtbx/queuing_system_utils/processing/__init__.py' adding 'libtbx/queuing_system_utils/processing/errors.py' adding 'libtbx/queuing_system_utils/processing/polling.py' adding 'libtbx/queuing_system_utils/processing/status.py' adding 'libtbx/queuing_system_utils/processing/submission.py' adding 'libtbx/queuing_system_utils/processing/transfer.py' adding 'libtbx/queuing_system_utils/processing/util.py' adding 'libtbx/scheduling/__init__.py' adding 'libtbx/scheduling/cluster_handler.py' adding 'libtbx/scheduling/file_queue.py' adding 'libtbx/scheduling/job_scheduler.py' adding 'libtbx/scheduling/mainthread.py' adding 'libtbx/scheduling/mp_handler.py' adding 'libtbx/scheduling/parallel_for.py' adding 'libtbx/scheduling/philgen.py' adding 'libtbx/scheduling/process_pool.py' adding 'libtbx/scheduling/result.py' adding 'libtbx/scheduling/shared_resource.py' adding 'libtbx/scheduling/socket_queue.py' adding 'libtbx/scheduling/stacktrace.py' adding 'libtbx/scheduling/thread_handler.py' adding 'libtbx/server/FileClient.py' adding 'libtbx/server/FileServer.py' adding 'libtbx/server/FileSocket.py' adding 'libtbx/server/SocketServer.py' adding 'libtbx/server/StartServer.py' adding 'libtbx/server/__init__.py' adding 'libtbx/sphinx/__init__.py' adding 'libtbx/sphinx/phil.py' adding 'libtbx/sphinx/pubmed.py' adding 'libtbx/sphinx/python_string.py' adding 'libtbx/test_utils/__init__.py' adding 'libtbx/test_utils/parallel.py' adding 'mmtbx/__init__.py' adding 'mmtbx/arrays.py' adding 'mmtbx/clashes.py' adding 'mmtbx/domains_from_pae.py' adding 'mmtbx/f_model_info.py' adding 'mmtbx/find_peaks.py' adding 'mmtbx/grow_density.py' adding 'mmtbx/invariant_domain.py' adding 'mmtbx/lattice.py' adding 'mmtbx/libtbx_refresh.py' adding 'mmtbx/map_tools.py' adding 'mmtbx/model_vs_data.py' adding 'mmtbx/msa.py' adding 'mmtbx/pdb_distances.py' adding 'mmtbx/pdb_symmetry.py' adding 'mmtbx/pdbtools.py' adding 'mmtbx/process_predicted_model.py' adding 'mmtbx/proq2.py' adding 'mmtbx/real_space_correlation.py' adding 'mmtbx/resolve_resources.py' adding 'mmtbx/restraints.py' adding 'mmtbx/run_tests.py' adding 'mmtbx/superpose.py' adding 'mmtbx/xmanip.py' adding 'mmtbx/xmanip_tasks.py' adding 'mmtbx/alignment/__init__.py' adding 'mmtbx/atomic_environment_vectors/__init__.py' adding 'mmtbx/atomic_environment_vectors/tst.py' adding 'mmtbx/building/__init__.py' adding 'mmtbx/building/cablam_idealization.py' adding 'mmtbx/building/extend_sidechains.py' adding 'mmtbx/building/loop_idealization.py' adding 'mmtbx/building/merge_models.py' adding 'mmtbx/building/minimize_chain.py' adding 'mmtbx/building/tst_extend_sidechains.py' adding 'mmtbx/building/tst_extend_sidechains_2.py' adding 'mmtbx/building/ligands/__init__.py' adding 'mmtbx/building/ligands/lifi.py' adding 'mmtbx/building/ligands/tst_00.py' adding 'mmtbx/building/loop_closure/__init__.py' adding 'mmtbx/building/loop_closure/berkeley_ramalyze.py' adding 'mmtbx/building/loop_closure/ccd.py' adding 'mmtbx/building/loop_closure/starting_conformations.py' adding 'mmtbx/building/loop_closure/utils.py' adding 'mmtbx/bulk_solvent/__init__.py' adding 'mmtbx/bulk_solvent/bulk_solvent_and_scaling.py' adding 'mmtbx/bulk_solvent/example.py' adding 'mmtbx/bulk_solvent/example2.py' adding 'mmtbx/bulk_solvent/f_model_all_scales.py' adding 'mmtbx/bulk_solvent/kbu_refinery.py' adding 'mmtbx/bulk_solvent/mosaic.py' adding 'mmtbx/bulk_solvent/multi_mask_bulk_solvent.py' adding 'mmtbx/bulk_solvent/scaler.py' adding 'mmtbx/bulk_solvent/tst_aniso_scaler.py' adding 'mmtbx/bulk_solvent/tst_bulk_solvent_and_scaling.py' adding 'mmtbx/bulk_solvent/tst_fit_kexpb_to_ktotal.py' adding 'mmtbx/bulk_solvent/tst_flat_nonuniform.py' adding 'mmtbx/bulk_solvent/tst_kb_sol_u_star_fd.py' adding 'mmtbx/bulk_solvent/tst_mosaic.py' adding 'mmtbx/bulk_solvent/tst_scaler.py' adding 'mmtbx/chemical_components/__init__.py' adding 'mmtbx/chemical_components/cif_parser.py' adding 'mmtbx/chemical_components/tst.py' adding 'mmtbx/command_line/__init__.py' adding 'mmtbx/command_line/altloc_remediate.py' adding 'mmtbx/command_line/angle.py' adding 'mmtbx/command_line/apply_ncs_to_ligand.py' adding 'mmtbx/command_line/arginine_geometry.py' adding 'mmtbx/command_line/atom_valence_simple.py' adding 'mmtbx/command_line/barbed_wire_analysis.py' adding 'mmtbx/command_line/cablam.py' adding 'mmtbx/command_line/cablam_idealization.py' adding 'mmtbx/command_line/cbetadev.py' adding 'mmtbx/command_line/cc_star.py' adding 'mmtbx/command_line/chiral_validation.py' adding 'mmtbx/command_line/cif_as_mtz.py' adding 'mmtbx/command_line/clashscore.py' adding 'mmtbx/command_line/clashscore2.py' adding 'mmtbx/command_line/comparama.py' adding 'mmtbx/command_line/debug_riding.py' adding 'mmtbx/command_line/density_modification.py' adding 'mmtbx/command_line/development_aev.py' adding 'mmtbx/command_line/development_fem.py' adding 'mmtbx/command_line/distance_difference.py' adding 'mmtbx/command_line/dynamics.py' adding 'mmtbx/command_line/electrons.py' adding 'mmtbx/command_line/emringer.py' adding 'mmtbx/command_line/emringer_score.py' adding 'mmtbx/command_line/estimate_bijvoet_ratio.py' adding 'mmtbx/command_line/f000.py' adding 'mmtbx/command_line/fab_elbow_angle.py' adding 'mmtbx/command_line/fake_f_obs.py' adding 'mmtbx/command_line/fetch_pdb.py' adding 'mmtbx/command_line/find_peaks_holes.py' adding 'mmtbx/command_line/find_residue_in_pdb.py' adding 'mmtbx/command_line/find_tls_groups.py' adding 'mmtbx/command_line/fmodel.py' adding 'mmtbx/command_line/fobs_minus_fobs_map.py' adding 'mmtbx/command_line/geometry_minimization.py' adding 'mmtbx/command_line/grow_density.py' adding 'mmtbx/command_line/hbond.py' adding 'mmtbx/command_line/helix_sheet_recs_as_pdb_files.py' adding 'mmtbx/command_line/holton_geometry_validation.py' adding 'mmtbx/command_line/hydrogenate.py' adding 'mmtbx/command_line/kinemage.py' adding 'mmtbx/command_line/ligand_restraints_validation.py' adding 'mmtbx/command_line/map_box.py' adding 'mmtbx/command_line/map_comparison.py' adding 'mmtbx/command_line/map_to_model_histogram.py' adding 'mmtbx/command_line/map_to_structure_factors.py' adding 'mmtbx/command_line/maps.py' adding 'mmtbx/command_line/mask.py' adding 'mmtbx/command_line/massage_data.py' adding 'mmtbx/command_line/matthews.py' adding 'mmtbx/command_line/maximum_entropy_map.py' adding 'mmtbx/command_line/model_idealization.py' adding 'mmtbx/command_line/model_map.py' adding 'mmtbx/command_line/model_model_distances.py' adding 'mmtbx/command_line/model_vs_data.py' adding 'mmtbx/command_line/model_vs_map.py' adding 'mmtbx/command_line/model_vs_sequence.py' adding 'mmtbx/command_line/models_as_chains.py' adding 'mmtbx/command_line/molprobity.py' adding 'mmtbx/command_line/mon_lib_cif_triage.py' adding 'mmtbx/command_line/mp_geo.py' adding 'mmtbx/command_line/mp_validate_bonds.py' adding 'mmtbx/command_line/mtz2map.py' adding 'mmtbx/command_line/next_gen_atom_typing.py' adding 'mmtbx/command_line/nonbonded_overlaps.py' adding 'mmtbx/command_line/omegalyze.py' adding 'mmtbx/command_line/pdb_atom_selection.py' adding 'mmtbx/command_line/pdb_interpretation.py' adding 'mmtbx/command_line/pdbtools.py' adding 'mmtbx/command_line/perigee.py' adding 'mmtbx/command_line/plan_sad_experiment.py' adding 'mmtbx/command_line/polder.py' adding 'mmtbx/command_line/prepare_pdb_deposition.py' adding 'mmtbx/command_line/probe2.py' adding 'mmtbx/command_line/probescore_ligand.py' adding 'mmtbx/command_line/process_predicted_model.py' adding 'mmtbx/command_line/prune_model.py' adding 'mmtbx/command_line/quantum_interface.py' adding 'mmtbx/command_line/r_factor_statistics.py' adding 'mmtbx/command_line/rama_z.py' adding 'mmtbx/command_line/ramalyze.py' adding 'mmtbx/command_line/rank_scale_map.py' adding 'mmtbx/command_line/real_space_correlation.py' adding 'mmtbx/command_line/real_space_diff_map.py' adding 'mmtbx/command_line/rebuild_cablam_cache.py' adding 'mmtbx/command_line/rebuild_rotarama_cache.py' adding 'mmtbx/command_line/reciprocal_space_arrays.py' adding 'mmtbx/command_line/reduce2.py' adding 'mmtbx/command_line/reduce_cryoem_resolution.py' adding 'mmtbx/command_line/refine_anomalous_substructure.py' adding 'mmtbx/command_line/remove_outliers.py' adding 'mmtbx/command_line/ribbons.py' adding 'mmtbx/command_line/rigid_bond_test.py' adding 'mmtbx/command_line/ringer.py' adding 'mmtbx/command_line/rna_validate.py' adding 'mmtbx/command_line/rna_validate_bonds.py' adding 'mmtbx/command_line/rna_validate_puckers.py' adding 'mmtbx/command_line/rna_validate_suites.py' adding 'mmtbx/command_line/rotalyze.py' adding 'mmtbx/command_line/search_pdb_symmetry.py' adding 'mmtbx/command_line/secondary_structure_restraints.py' adding 'mmtbx/command_line/secondary_structure_validation.py' adding 'mmtbx/command_line/select_best_starting_model.py' adding 'mmtbx/command_line/show_r_factors_by_shell.py' adding 'mmtbx/command_line/sisa.py' adding 'mmtbx/command_line/sort_hetatms.py' adding 'mmtbx/command_line/ss_idealization.py' adding 'mmtbx/command_line/suitename.py' adding 'mmtbx/command_line/suitename_old.py' adding 'mmtbx/command_line/super.py' adding 'mmtbx/command_line/superpose.py' adding 'mmtbx/command_line/taam_minus_iam.py' adding 'mmtbx/command_line/table_one.py' adding 'mmtbx/command_line/tls.py' adding 'mmtbx/command_line/tls_analysis.py' adding 'mmtbx/command_line/tls_as_xyz.py' adding 'mmtbx/command_line/undowser.py' adding 'mmtbx/command_line/undowser2.py' adding 'mmtbx/command_line/validate_H_cl_app.py' adding 'mmtbx/command_line/validate_ligands.py' adding 'mmtbx/command_line/validation_summary.py' adding 'mmtbx/command_line/verify_mon_lib_data.py' adding 'mmtbx/command_line/water_b_factors.py' adding 'mmtbx/command_line/where_is_that_cif_file.py' adding 'mmtbx/command_line/xmanip.py' adding 'mmtbx/command_line/xtrapol8.py' adding 'mmtbx/command_line/xtriage.py' adding 'mmtbx/conformation_dependent_library/LinkedResidues.py' adding 'mmtbx/conformation_dependent_library/__init__.py' adding 'mmtbx/conformation_dependent_library/altloc_weighting.py' adding 'mmtbx/conformation_dependent_library/bond_angle_registry.py' adding 'mmtbx/conformation_dependent_library/cdl_database.py' adding 'mmtbx/conformation_dependent_library/cdl_setup.py' adding 'mmtbx/conformation_dependent_library/cdl_svl_database.py' adding 'mmtbx/conformation_dependent_library/cdl_utils.py' adding 'mmtbx/conformation_dependent_library/check_cdl_database.py' adding 'mmtbx/conformation_dependent_library/density_dependent_restraints.py' adding 'mmtbx/conformation_dependent_library/enol_peptide_restraints.py' adding 'mmtbx/conformation_dependent_library/histidines.py' adding 'mmtbx/conformation_dependent_library/hpdl_database.py' adding 'mmtbx/conformation_dependent_library/hydrogen_bonding.py' adding 'mmtbx/conformation_dependent_library/investigate_rotamer_space.py' adding 'mmtbx/conformation_dependent_library/mcl.py' adding 'mmtbx/conformation_dependent_library/mcl_sf4_coordination.py' adding 'mmtbx/conformation_dependent_library/metal_coordination_library.py' adding 'mmtbx/conformation_dependent_library/multi_base_class.py' adding 'mmtbx/conformation_dependent_library/multi_residue_cdl_class.py' adding 'mmtbx/conformation_dependent_library/multi_residue_class.py' adding 'mmtbx/conformation_dependent_library/nucleotides.py' adding 'mmtbx/conformation_dependent_library/omega.py' adding 'mmtbx/conformation_dependent_library/omega_database.py' adding 'mmtbx/conformation_dependent_library/pH_dependent_restraints.py' adding 'mmtbx/conformation_dependent_library/rdl_database.py' adding 'mmtbx/conformation_dependent_library/rotamers.py' adding 'mmtbx/conformation_dependent_library/sf4_restraints.py' adding 'mmtbx/conformation_dependent_library/testing_utils.py' adding 'mmtbx/conformation_dependent_library/tst_cdl.py' adding 'mmtbx/conformation_dependent_library/tst_cdl_esd.py' adding 'mmtbx/conformation_dependent_library/tst_cdl_nucleotides.py' adding 'mmtbx/conformation_dependent_library/tst_cis_c_n_ca.py' adding 'mmtbx/conformation_dependent_library/tst_enol_peptide.py' adding 'mmtbx/conformation_dependent_library/tst_hpdl.py' adding 'mmtbx/conformation_dependent_library/tst_mcl_01.py' adding 'mmtbx/conformation_dependent_library/tst_mcl_02.py' adding 'mmtbx/conformation_dependent_library/tst_mcl_03.py' adding 'mmtbx/conformation_dependent_library/tst_multi_residue_rna.py' adding 'mmtbx/conformation_dependent_library/tst_mutli_residue.py' adding 'mmtbx/conformation_dependent_library/tst_omega_cdl.py' adding 'mmtbx/conformation_dependent_library/tst_pH_mechanism.py' adding 'mmtbx/conformation_dependent_library/tst_poly_ca_multi_residue.py' adding 'mmtbx/conformation_dependent_library/tst_rdl.py' adding 'mmtbx/conformation_dependent_library/tst_rna_dna_fragments.py' adding 'mmtbx/conformation_dependent_library/utils.py' adding 'mmtbx/den/__init__.py' adding 'mmtbx/den/plot_weights.py' adding 'mmtbx/den/refinement.py' adding 'mmtbx/density_modification/__init__.py' adding 'mmtbx/density_modification/tst_density_modification.py' adding 'mmtbx/disorder/__init__.py' adding 'mmtbx/disorder/analyze_model.py' adding 'mmtbx/disorder/backbone.py' adding 'mmtbx/disorder/tst.py' adding 'mmtbx/disorder/tst_analyze_model.py' adding 'mmtbx/disorder/tst_backbone.py' adding 'mmtbx/dynamics/__init__.py' adding 'mmtbx/dynamics/cartesian_dynamics.py' adding 'mmtbx/dynamics/constants.py' adding 'mmtbx/dynamics/ensemble_cd.py' adding 'mmtbx/dynamics/simulated_annealing.py' adding 'mmtbx/dynamics/tst_cartesian_dynamics.py' adding 'mmtbx/dynamics/tst_sa.py' adding 'mmtbx/f_model/__init__.py' adding 'mmtbx/f_model/f_model.py' adding 'mmtbx/f_model/f_model_info.py' adding 'mmtbx/geometry/__init__.py' adding 'mmtbx/geometry/altloc.py' adding 'mmtbx/geometry/asa.py' adding 'mmtbx/geometry/clash.py' adding 'mmtbx/geometry/indexing.py' adding 'mmtbx/geometry/shared_types.py' adding 'mmtbx/geometry/sphere_surface_sampling.py' adding 'mmtbx/geometry/topology.py' adding 'mmtbx/geometry_restraints/__init__.py' adding 'mmtbx/geometry_restraints/afitt.py' adding 'mmtbx/geometry_restraints/base_qm_manager.py' adding 'mmtbx/geometry_restraints/c_beta.py' adding 'mmtbx/geometry_restraints/external.py' adding 'mmtbx/geometry_restraints/geo_file_parsing.py' adding 'mmtbx/geometry_restraints/mopac_manager.py' adding 'mmtbx/geometry_restraints/orca_manager.py' adding 'mmtbx/geometry_restraints/qi_utils.py' adding 'mmtbx/geometry_restraints/qm_manager.py' adding 'mmtbx/geometry_restraints/quantum_interface.py' adding 'mmtbx/geometry_restraints/quantum_restraints_manager.py' adding 'mmtbx/geometry_restraints/ramachandran.py' adding 'mmtbx/geometry_restraints/reference.py' adding 'mmtbx/geometry_restraints/tst_c_beta_restraints.py' adding 'mmtbx/geometry_restraints/tst_geo_file_parsing.py' adding 'mmtbx/geometry_restraints/tst_manager.py' adding 'mmtbx/geometry_restraints/tst_ramachandran.py' adding 'mmtbx/geometry_restraints/tst_reference_coordinate.py' adding 'mmtbx/geometry_restraints/tst_reference_coordinate2.py' adding 'mmtbx/geometry_restraints/torsion_restraints/__init__.py' adding 'mmtbx/geometry_restraints/torsion_restraints/reference_model.py' adding 'mmtbx/geometry_restraints/torsion_restraints/rotamer_search.py' adding 'mmtbx/geometry_restraints/torsion_restraints/torsion_ncs.py' adding 'mmtbx/geometry_restraints/torsion_restraints/tst_reference_model.py' adding 'mmtbx/geometry_restraints/torsion_restraints/tst_reference_model_ligands.py' adding 'mmtbx/geometry_restraints/torsion_restraints/tst_torsion_ncs.py' adding 'mmtbx/geometry_restraints/torsion_restraints/utils.py' adding 'mmtbx/hydrogens/__init__.py' adding 'mmtbx/hydrogens/build_hydrogens.py' adding 'mmtbx/hydrogens/connectivity.py' adding 'mmtbx/hydrogens/find.py' adding 'mmtbx/hydrogens/neutron_utils.py' adding 'mmtbx/hydrogens/parameterization.py' adding 'mmtbx/hydrogens/reduce_hydrogen.py' adding 'mmtbx/hydrogens/riding.py' adding 'mmtbx/hydrogens/specialised_hydrogen_atoms.py' adding 'mmtbx/hydrogens/tst.py' adding 'mmtbx/hydrogens/tst_add_hydrogen.py' adding 'mmtbx/hydrogens/tst_add_hydrogen_0.py' adding 'mmtbx/hydrogens/tst_add_hydrogen_1.py' adding 'mmtbx/hydrogens/tst_add_hydrogen_2.py' adding 'mmtbx/hydrogens/tst_add_hydrogen_3.py' adding 'mmtbx/hydrogens/tst_add_hydrogen_4.py' adding 'mmtbx/hydrogens/tst_add_hydrogen_5.py' adding 'mmtbx/hydrogens/tst_add_hydrogen_6.py' adding 'mmtbx/hydrogens/tst_add_hydrogen_7.py' adding 'mmtbx/hydrogens/tst_add_hydrogen_8.py' adding 'mmtbx/hydrogens/tst_add_hydrogen_9.py' adding 'mmtbx/hydrogens/tst_add_hydrogen_time.py' adding 'mmtbx/hydrogens/tst_connectivity.py' adding 'mmtbx/hydrogens/tst_parameterization_1.py' adding 'mmtbx/hydrogens/tst_parameterization_2.py' adding 'mmtbx/hydrogens/tst_parameterization_3.py' adding 'mmtbx/hydrogens/tst_parameterization_4.py' adding 'mmtbx/hydrogens/tst_parameterization_5.py' adding 'mmtbx/hydrogens/tst_parameterization_6.py' adding 'mmtbx/hydrogens/tst_parameterization_7.py' adding 'mmtbx/hydrogens/tst_parameterization_8.py' adding 'mmtbx/hydrogens/tst_parameterization_9.py' adding 'mmtbx/hydrogens/tst_riding_coefficients.py' adding 'mmtbx/hydrogens/tst_riding_fd_1.py' adding 'mmtbx/hydrogens/tst_riding_fd_2.py' adding 'mmtbx/hydrogens/tst_riding_fd_3.py' adding 'mmtbx/hydrogens/tst_riding_fd_4.py' adding 'mmtbx/hydrogens/tst_riding_fd_5.py' adding 'mmtbx/hydrogens/tst_riding_manager.py' adding 'mmtbx/hydrogens/tst_riding_minimize.py' adding 'mmtbx/hydrogens/tst_validate_H.py' adding 'mmtbx/hydrogens/validate_H.py' adding 'mmtbx/ias/__init__.py' adding 'mmtbx/ias/tst_ias.py' adding 'mmtbx/idealized_aa_residues/__init__.py' adding 'mmtbx/idealized_aa_residues/all_his.py' adding 'mmtbx/idealized_aa_residues/rotamer_manager.py' adding 'mmtbx/idealized_aa_residues/sample_rotamers.py' adding 'mmtbx/idealized_aa_residues/tst.py' adding 'mmtbx/ions/__init__.py' adding 'mmtbx/ions/build.py' adding 'mmtbx/ions/environment.py' adding 'mmtbx/ions/geometry.py' adding 'mmtbx/ions/halides.py' adding 'mmtbx/ions/identify.py' adding 'mmtbx/ions/tst_environment.py' adding 'mmtbx/ions/tst_geometries.py' adding 'mmtbx/ions/tst_parameters.py' adding 'mmtbx/ions/tst_pick_approx_zn.py' adding 'mmtbx/ions/tst_pick_ca.py' adding 'mmtbx/ions/tst_pick_ca_svm.py' adding 'mmtbx/ions/tst_pick_k.py' adding 'mmtbx/ions/tst_pick_mg.py' adding 'mmtbx/ions/tst_pickle.py' adding 'mmtbx/ions/tst_symmetry_axis.py' adding 'mmtbx/ions/tst_utils.py' adding 'mmtbx/ions/tst_validate_ca.py' adding 'mmtbx/ions/tst_validate_mg.py' adding 'mmtbx/ions/utils.py' adding 'mmtbx/ions/svm/__init__.py' adding 'mmtbx/ions/svm/dump_sites.py' adding 'mmtbx/ions/svm/tst_classifier_01.py' adding 'mmtbx/ions/svm/tst_classifier_02.py' adding 'mmtbx/ions/svm/utils.py' adding 'mmtbx/kinemage/__init__.py' adding 'mmtbx/kinemage/nrubs.py' adding 'mmtbx/kinemage/ribbons.py' adding 'mmtbx/kinemage/validation.py' adding 'mmtbx/ligands/__init__.py' adding 'mmtbx/ligands/chemistry.py' adding 'mmtbx/ligands/elbow_utils.py' adding 'mmtbx/ligands/electrons.py' adding 'mmtbx/ligands/hierarchy_utils.py' adding 'mmtbx/ligands/rdkit_utils.py' adding 'mmtbx/ligands/ready_set_basics.py' adding 'mmtbx/ligands/ready_set_utils.py' adding 'mmtbx/ligands/tst_electron_scripting.py' adding 'mmtbx/ligands/tst_ready_set_utils.py' adding 'mmtbx/ligands/tst_xtal_screens.py' adding 'mmtbx/ligands/xtal_screens.py' adding 'mmtbx/maps/__init__.py' adding 'mmtbx/maps/composite_omit_map.py' adding 'mmtbx/maps/correlation.py' adding 'mmtbx/maps/fem.py' adding 'mmtbx/maps/fobs_minus_fobs_map.py' adding 'mmtbx/maps/kick.py' adding 'mmtbx/maps/map_model_cc.py' adding 'mmtbx/maps/mtriage.py' adding 'mmtbx/maps/polder.py' adding 'mmtbx/maps/superpose.py' adding 'mmtbx/maps/tst_composite_omit_map.py' adding 'mmtbx/maps/tst_composite_omit_map_2.py' adding 'mmtbx/maps/tst_composite_omit_map_3.py' adding 'mmtbx/maps/tst_correlation.py' adding 'mmtbx/maps/tst_map_model_cc_and_vals_per_atom_xtal.py' adding 'mmtbx/maps/utils.py' adding 'mmtbx/maps/xtrapol8.py' adding 'mmtbx/masks/__init__.py' adding 'mmtbx/masks/tst_asu_mask.py' adding 'mmtbx/masks/tst_masks.py' adding 'mmtbx/max_lik/__init__.py' adding 'mmtbx/max_lik/max_like_non_uniform.py' adding 'mmtbx/max_lik/maxlik.py' adding 'mmtbx/max_lik/tst_max_lik.py' adding 'mmtbx/max_lik/tst_maxlik.py' adding 'mmtbx/model/__init__.py' adding 'mmtbx/model/model.py' adding 'mmtbx/model/restraints.py' adding 'mmtbx/model/statistics.py' adding 'mmtbx/model/utils.py' adding 'mmtbx/monomer_library/__init__.py' adding 'mmtbx/monomer_library/bondlength_defaults.py' adding 'mmtbx/monomer_library/cif_triage.py' adding 'mmtbx/monomer_library/cif_types.py' adding 'mmtbx/monomer_library/conformation_dependent_restraints.py' adding 'mmtbx/monomer_library/conv_v2_v3.py' adding 'mmtbx/monomer_library/correct_hydrogen_geometries.py' adding 'mmtbx/monomer_library/geostd_utils.py' adding 'mmtbx/monomer_library/glyco_chiral_values.py' adding 'mmtbx/monomer_library/glyco_utils.py' adding 'mmtbx/monomer_library/hydrogen_restrictions.py' adding 'mmtbx/monomer_library/idealized_aa.py' adding 'mmtbx/monomer_library/linking_mixins.py' adding 'mmtbx/monomer_library/linking_setup.py' adding 'mmtbx/monomer_library/linking_utils.py' adding 'mmtbx/monomer_library/mmtbx_utils.py' adding 'mmtbx/monomer_library/pdb_interpretation.py' adding 'mmtbx/monomer_library/populate_auto_linking_origin_ids.py' adding 'mmtbx/monomer_library/rna_sugar_pucker_analysis.py' adding 'mmtbx/monomer_library/rotamer_utils.py' adding 'mmtbx/monomer_library/server.py' adding 'mmtbx/monomer_library/tst_all_cif_files.py' adding 'mmtbx/monomer_library/tst_carbo_linking.py' adding 'mmtbx/monomer_library/tst_chg.py' adding 'mmtbx/monomer_library/tst_cif_triage.py' adding 'mmtbx/monomer_library/tst_cif_types.py' adding 'mmtbx/monomer_library/tst_correct_hydrogens.py' adding 'mmtbx/monomer_library/tst_deuterium_terminii.py' adding 'mmtbx/monomer_library/tst_geo_reduce_for_tardy.py' adding 'mmtbx/monomer_library/tst_glyco_coordination.py' adding 'mmtbx/monomer_library/tst_glyco_hand.py' adding 'mmtbx/monomer_library/tst_idealized_aa.py' adding 'mmtbx/monomer_library/tst_iron_sulfur_clusters.py' adding 'mmtbx/monomer_library/tst_linking.py' adding 'mmtbx/monomer_library/tst_metal_coordination.py' adding 'mmtbx/monomer_library/tst_motif.py' adding 'mmtbx/monomer_library/tst_neutron_distance.py' adding 'mmtbx/monomer_library/tst_paral_geo.py' adding 'mmtbx/monomer_library/tst_pdb_interpretation.py' adding 'mmtbx/monomer_library/tst_pdb_interpretation_2.py' adding 'mmtbx/monomer_library/tst_pdb_interpretation_3.py' adding 'mmtbx/monomer_library/tst_pdb_interpretation_4.py' adding 'mmtbx/monomer_library/tst_pdb_interpretation_5.py' adding 'mmtbx/monomer_library/tst_pdb_interpretation_ncs_processing.py' adding 'mmtbx/monomer_library/tst_protein_interpretation.py' adding 'mmtbx/monomer_library/tst_rna_dna_interpretation.py' adding 'mmtbx/monomer_library/tst_rna_sugar_pucker_analysis.py' adding 'mmtbx/monomer_library/tst_rotamer_utils.py' adding 'mmtbx/monomer_library/tst_selection.py' adding 'mmtbx/monomer_library/tst_server.py' adding 'mmtbx/monomer_library/tst_superpose_ideal.py' adding 'mmtbx/monomer_library/tst_tyr_from_gly_and_bnz.py' adding 'mmtbx/monomer_library/tst_user_supplied_library.py' adding 'mmtbx/nci/__init__.py' adding 'mmtbx/nci/data_filtering.py' adding 'mmtbx/nci/hbond.py' adding 'mmtbx/nci/skew_kurt_plot.py' adding 'mmtbx/nci/tst_hbond.py' adding 'mmtbx/ncs/__init__.py' adding 'mmtbx/ncs/cartesian_restraints.py' adding 'mmtbx/ncs/ligands.py' adding 'mmtbx/ncs/ncs.py' adding 'mmtbx/ncs/ncs_params.py' adding 'mmtbx/ncs/ncs_restraints_group_list.py' adding 'mmtbx/ncs/ncs_search.py' adding 'mmtbx/ncs/ncs_utils.py' adding 'mmtbx/ncs/tncs.py' adding 'mmtbx/pair_interaction/__init__.py' adding 'mmtbx/pair_interaction/pair_interaction.py' adding 'mmtbx/pair_interaction/tst_00.py' adding 'mmtbx/pair_interaction/tst_01.py' adding 'mmtbx/pair_interaction/tst_02.py' adding 'mmtbx/pair_interaction/tst_03.py' adding 'mmtbx/pair_interaction/tst_04.py' adding 'mmtbx/pair_interaction/tst_05.py' adding 'mmtbx/polygon/__init__.py' adding 'mmtbx/polygon/output.py' adding 'mmtbx/polygon/tst.py' adding 'mmtbx/polygon/tst_gui.py' adding 'mmtbx/polygon/tst_polygon_data.py' adding 'mmtbx/probe/AtomTypes.py' adding 'mmtbx/probe/CompareOriginalAndNewProbeAtomInfo.py' adding 'mmtbx/probe/Helpers.py' adding 'mmtbx/probe/__init__.py' adding 'mmtbx/probe/tst_mmtbx_probe_ext.py' adding 'mmtbx/programs/__init__.py' adding 'mmtbx/programs/arginine_geometry.py' adding 'mmtbx/programs/atom_selection.py' adding 'mmtbx/programs/atom_valence_simple.py' adding 'mmtbx/programs/barbed_wire_analysis.py' adding 'mmtbx/programs/cablam.py' adding 'mmtbx/programs/cablam_idealization.py' adding 'mmtbx/programs/cbetadev.py' adding 'mmtbx/programs/chiral_validation.py' adding 'mmtbx/programs/clashscore.py' adding 'mmtbx/programs/clashscore2.py' adding 'mmtbx/programs/comparama.py' adding 'mmtbx/programs/debug_riding.py' adding 'mmtbx/programs/elbow_services.py' adding 'mmtbx/programs/emringer.py' adding 'mmtbx/programs/fetch.py' adding 'mmtbx/programs/fmodel.py' adding 'mmtbx/programs/hbond.py' adding 'mmtbx/programs/holton_geometry_validation.py' adding 'mmtbx/programs/hydrogenate.py' adding 'mmtbx/programs/ligand_restraints_validation.py' adding 'mmtbx/programs/mask.py' adding 'mmtbx/programs/matthews.py' adding 'mmtbx/programs/model_vs_sequence.py' adding 'mmtbx/programs/mp_validate_bonds.py' adding 'mmtbx/programs/next_gen_atom_typing.py' adding 'mmtbx/programs/nonbonded_overlaps.py' adding 'mmtbx/programs/omegalyze.py' adding 'mmtbx/programs/pdb_as_cif.py' adding 'mmtbx/programs/pdbtools.py' adding 'mmtbx/programs/polder.py' adding 'mmtbx/programs/prepare_pdb_deposition.py' adding 'mmtbx/programs/probe2.py' adding 'mmtbx/programs/probescore_ligand.py' adding 'mmtbx/programs/process_predicted_model.py' adding 'mmtbx/programs/quantum_interface.py' adding 'mmtbx/programs/rama_z.py' adding 'mmtbx/programs/ramalyze.py' adding 'mmtbx/programs/real_space_correlation.py' adding 'mmtbx/programs/reduce2.py' adding 'mmtbx/programs/reduce_cryoem_resolution.py' adding 'mmtbx/programs/ribbons.py' adding 'mmtbx/programs/rna_validate.py' adding 'mmtbx/programs/rna_validate_bonds.py' adding 'mmtbx/programs/rna_validate_puckers.py' adding 'mmtbx/programs/rna_validate_suites.py' adding 'mmtbx/programs/rotalyze.py' adding 'mmtbx/programs/ss_idealization.py' adding 'mmtbx/programs/ss_validation.py' adding 'mmtbx/programs/suitename.py' adding 'mmtbx/programs/suitename_old.py' adding 'mmtbx/programs/taam_minus_iam.py' adding 'mmtbx/programs/undowser.py' adding 'mmtbx/programs/undowser2.py' adding 'mmtbx/programs/validate_ligands.py' adding 'mmtbx/programs/water_b_factors.py' adding 'mmtbx/programs/xtrapol8.py' adding 'mmtbx/real_space/__init__.py' adding 'mmtbx/real_space/tst.py' adding 'mmtbx/reduce/InteractionGraph.py' adding 'mmtbx/reduce/Movers.py' adding 'mmtbx/reduce/Optimizers.py' adding 'mmtbx/reduce/__init__.py' adding 'mmtbx/reduce/tst_mmtbx_reduce_ext.py' adding 'mmtbx/refinement/__init__.py' adding 'mmtbx/refinement/adp_refinement.py' adding 'mmtbx/refinement/anomalous_scatterer_groups.py' adding 'mmtbx/refinement/calculators.py' adding 'mmtbx/refinement/data.py' adding 'mmtbx/refinement/energy_monitor.py' adding 'mmtbx/refinement/flip_peptide_side_chain.py' adding 'mmtbx/refinement/geometry_minimization.py' adding 'mmtbx/refinement/group.py' adding 'mmtbx/refinement/inspect_tardy_trajectory.py' adding 'mmtbx/refinement/minimization.py' adding 'mmtbx/refinement/minimization_monitor.py' adding 'mmtbx/refinement/minimization_ncs_constraints.py' adding 'mmtbx/refinement/occupancies.py' adding 'mmtbx/refinement/orca.py' adding 'mmtbx/refinement/print_statistics.py' adding 'mmtbx/refinement/refinement_flags.py' adding 'mmtbx/refinement/restraints.py' adding 'mmtbx/refinement/rigid_body.py' adding 'mmtbx/refinement/select_best_starting_model.py' adding 'mmtbx/refinement/tardy.py' adding 'mmtbx/refinement/targets.py' adding 'mmtbx/refinement/tst_anomalous_scatterer_groups.py' adding 'mmtbx/refinement/tst_fit_rotamers.py' adding 'mmtbx/refinement/tst_group.py' adding 'mmtbx/refinement/tst_group_2.py' adding 'mmtbx/refinement/tst_misc.py' adding 'mmtbx/refinement/tst_occupancy_selections.py' adding 'mmtbx/refinement/tst_real_space_simple.py' adding 'mmtbx/refinement/tst_refinement_flags.py' adding 'mmtbx/refinement/tst_rigid_body.py' adding 'mmtbx/refinement/tst_rigid_body_groups_from_pdb_chains.py' adding 'mmtbx/refinement/tst_select_best_starting_model.py' adding 'mmtbx/refinement/utils.py' adding 'mmtbx/refinement/weights.py' adding 'mmtbx/refinement/weights_params.py' adding 'mmtbx/refinement/wrappers.py' adding 'mmtbx/refinement/wx_tardy_pdb.py' adding 'mmtbx/refinement/ensemble_refinement/__init__.py' adding 'mmtbx/refinement/ensemble_refinement/ensemble_probability.py' adding 'mmtbx/refinement/ensemble_refinement/ensemble_utils.py' adding 'mmtbx/refinement/real_space/__init__.py' adding 'mmtbx/refinement/real_space/adp.py' adding 'mmtbx/refinement/real_space/explode_and_refine.py' adding 'mmtbx/refinement/real_space/fit_his.py' adding 'mmtbx/refinement/real_space/fit_residue.py' adding 'mmtbx/refinement/real_space/fit_residues.py' adding 'mmtbx/refinement/real_space/fit_small_molecule.py' adding 'mmtbx/refinement/real_space/fit_water.py' adding 'mmtbx/refinement/real_space/individual_sites.py' adding 'mmtbx/refinement/real_space/occupancy.py' adding 'mmtbx/refinement/real_space/rigid_body.py' adding 'mmtbx/refinement/real_space/tst_aa_residue_axes_and_clusters.py' adding 'mmtbx/refinement/real_space/tst_fit_residue_0.py' adding 'mmtbx/refinement/real_space/tst_fit_residue_0H.py' adding 'mmtbx/refinement/real_space/tst_fit_residue_1.py' adding 'mmtbx/refinement/real_space/tst_fit_residue_1H.py' adding 'mmtbx/refinement/real_space/tst_fit_residue_2.py' adding 'mmtbx/refinement/real_space/tst_fit_residue_3.py' adding 'mmtbx/refinement/real_space/tst_fit_residue_4.py' adding 'mmtbx/refinement/real_space/tst_fit_residue_5.py' adding 'mmtbx/refinement/real_space/tst_fit_residue_6.py' adding 'mmtbx/refinement/real_space/tst_fit_residue_7.py' adding 'mmtbx/refinement/real_space/tst_fit_residue_full_sampling.py' adding 'mmtbx/refinement/real_space/tst_fit_residues_1.py' adding 'mmtbx/refinement/real_space/tst_fit_residues_1H.py' adding 'mmtbx/refinement/real_space/tst_fit_residues_2.py' adding 'mmtbx/refinement/real_space/tst_fit_residues_3.py' adding 'mmtbx/refinement/real_space/tst_fit_residues_4.py' adding 'mmtbx/refinement/real_space/tst_fit_residues_5.py' adding 'mmtbx/refinement/real_space/tst_fit_residues_6.py' adding 'mmtbx/refinement/real_space/tst_fit_residues_selection.py' adding 'mmtbx/refinement/real_space/tst_fit_water.py' adding 'mmtbx/refinement/real_space/tst_individual_sites_1.py' adding 'mmtbx/refinement/real_space/tst_individual_sites_2.py' adding 'mmtbx/refinement/real_space/tst_individual_sites_3.py' adding 'mmtbx/refinement/real_space/tst_monitor.py' adding 'mmtbx/refinement/real_space/tst_rigid_body.py' adding 'mmtbx/refinement/real_space/tst_weight.py' adding 'mmtbx/refinement/real_space/utils.py' adding 'mmtbx/refinement/real_space/weight.py' adding 'mmtbx/regression/__init__.py' adding 'mmtbx/regression/make_fake_anomalous_data.py' adding 'mmtbx/regression/tst_add_arrows_on_plot.py' adding 'mmtbx/regression/tst_add_h_to_water.py' adding 'mmtbx/regression/tst_adp_restraints.py' adding 'mmtbx/regression/tst_alignment.py' adding 'mmtbx/regression/tst_altloc_chain_break.py' adding 'mmtbx/regression/tst_altloc_remediate.py' adding 'mmtbx/regression/tst_angle.py' adding 'mmtbx/regression/tst_anomalous_substructure.py' adding 'mmtbx/regression/tst_apply_cif_restraints.py' adding 'mmtbx/regression/tst_arginine_geometry.py' adding 'mmtbx/regression/tst_cc_star.py' adding 'mmtbx/regression/tst_chain_comparison.py' adding 'mmtbx/regression/tst_chain_comparison_cif.py' adding 'mmtbx/regression/tst_cif_as_mtz_wavelengths.py' adding 'mmtbx/regression/tst_cis_trans_peptide_link.py' adding 'mmtbx/regression/tst_clashes.py' adding 'mmtbx/regression/tst_command_line_input.py' adding 'mmtbx/regression/tst_domains_from_pae.py' adding 'mmtbx/regression/tst_domains_from_pae_cif.py' adding 'mmtbx/regression/tst_dynamics_cli.py' adding 'mmtbx/regression/tst_examples.py' adding 'mmtbx/regression/tst_find_ncs.py' adding 'mmtbx/regression/tst_find_ss_structure.py' adding 'mmtbx/regression/tst_find_ss_structure_cif.py' adding 'mmtbx/regression/tst_flipping_his.py' adding 'mmtbx/regression/tst_fmodel.py' adding 'mmtbx/regression/tst_fmodel_2.py' adding 'mmtbx/regression/tst_fmodel_and_dm.py' adding 'mmtbx/regression/tst_fmodel_fd.py' adding 'mmtbx/regression/tst_fmodel_misc.py' adding 'mmtbx/regression/tst_fmodel_no_cryst1.py' adding 'mmtbx/regression/tst_geo_min_restraints_phil.py' adding 'mmtbx/regression/tst_geometry_minimization.py' adding 'mmtbx/regression/tst_helix_sheet_recs_as_pdb_files.py' adding 'mmtbx/regression/tst_holton_geometry_validation.py' adding 'mmtbx/regression/tst_isomorphous_difference_misc.py' adding 'mmtbx/regression/tst_ligand_ncs.py' adding 'mmtbx/regression/tst_loop_closure.py' adding 'mmtbx/regression/tst_lrv.py' adding 'mmtbx/regression/tst_map_model_cc.py' adding 'mmtbx/regression/tst_map_type_parser.py' adding 'mmtbx/regression/tst_maps_misc.py' adding 'mmtbx/regression/tst_metal_link_1.py' adding 'mmtbx/regression/tst_minimize_chain.py' adding 'mmtbx/regression/tst_ml_estimate.py' adding 'mmtbx/regression/tst_mmtbx_refinement_wrappers.py' adding 'mmtbx/regression/tst_mmtbx_refinement_wrappers_1.py' adding 'mmtbx/regression/tst_mmtbx_refinement_wrappers_2.py' adding 'mmtbx/regression/tst_model_map.py' adding 'mmtbx/regression/tst_model_vs_map.py' adding 'mmtbx/regression/tst_model_vs_sequence.py' adding 'mmtbx/regression/tst_models_to_from_chains.py' adding 'mmtbx/regression/tst_msa.py' adding 'mmtbx/regression/tst_mtz2map.py' adding 'mmtbx/regression/tst_multi_residue_class.py' adding 'mmtbx/regression/tst_origin_ids.py' adding 'mmtbx/regression/tst_pdbtools.py' adding 'mmtbx/regression/tst_polder.py' adding 'mmtbx/regression/tst_polder_1.py' adding 'mmtbx/regression/tst_polder_2.py' adding 'mmtbx/regression/tst_polder_3.py' adding 'mmtbx/regression/tst_polder_4.py' adding 'mmtbx/regression/tst_polder_box.py' adding 'mmtbx/regression/tst_polder_ccs.py' adding 'mmtbx/regression/tst_probe.py' adding 'mmtbx/regression/tst_process_predicted_model.py' adding 'mmtbx/regression/tst_process_predicted_model_cif.py' adding 'mmtbx/regression/tst_prune_model.py' adding 'mmtbx/regression/tst_psi_phi_extraction.py' adding 'mmtbx/regression/tst_rank_scale_map.py' adding 'mmtbx/regression/tst_rdkit_utils_fragmentation.py' adding 'mmtbx/regression/tst_real_space_correlation.py' adding 'mmtbx/regression/tst_reduce.py' adding 'mmtbx/regression/tst_reduce_cryoem_resolution.py' adding 'mmtbx/regression/tst_reduce_timeout.py' adding 'mmtbx/regression/tst_refine_anomalous_substructure.py' adding 'mmtbx/regression/tst_regularize_from_pdb.py' adding 'mmtbx/regression/tst_regularize_from_pdb_cif.py' adding 'mmtbx/regression/tst_ribbons.py' adding 'mmtbx/regression/tst_rigid_bond_test.py' adding 'mmtbx/regression/tst_ringer.py' adding 'mmtbx/regression/tst_sampled_model_density.py' adding 'mmtbx/regression/tst_scattering_table.py' adding 'mmtbx/regression/tst_scattering_type_registry.py' adding 'mmtbx/regression/tst_schrodinger_interface.py' adding 'mmtbx/regression/tst_sequence_validation.py' adding 'mmtbx/regression/tst_sort_hetatms.py' adding 'mmtbx/regression/tst_special_term_at_end.py' adding 'mmtbx/regression/tst_statistics_output.py' adding 'mmtbx/regression/tst_superpose.py' adding 'mmtbx/regression/tst_table_one.py' adding 'mmtbx/regression/tst_utils.py' adding 'mmtbx/regression/tst_validate_ligands.py' adding 'mmtbx/regression/tst_validate_ligands_2.py' adding 'mmtbx/regression/tst_validation_summary.py' adding 'mmtbx/regression/model/__init__.py' adding 'mmtbx/regression/model/tst_model.py' adding 'mmtbx/regression/model/tst_model_2.py' adding 'mmtbx/regression/model/tst_model_biomt_mtrix.py' adding 'mmtbx/regression/model/tst_model_biomt_mtrix_2.py' adding 'mmtbx/regression/model/tst_model_cart_ref_restraints.py' adding 'mmtbx/regression/model/tst_model_dedeuterate.py' adding 'mmtbx/regression/model/tst_model_get_vdw_radii.py' adding 'mmtbx/regression/model/tst_model_merge.py' adding 'mmtbx/regression/model/tst_model_mtrix.py' adding 'mmtbx/regression/model/tst_model_ncs.py' adding 'mmtbx/regression/model/tst_model_neutralize_scatterers.py' adding 'mmtbx/regression/model/tst_model_pairs_within.py' adding 'mmtbx/regression/model/tst_model_ramachandran.py' adding 'mmtbx/regression/model/tst_model_remove_alternative_conformations.py' adding 'mmtbx/regression/model/tst_model_set_hydrogen_bond_length.py' adding 'mmtbx/regression/model/tst_model_symmetry.py' adding 'mmtbx/regression/model/tst_model_tors_ref_restraints.py' adding 'mmtbx/regression/model/tst_model_utils_merge_models.py' adding 'mmtbx/regression/model/tst_restrain_selection_to_self_or_neighbors.py' adding 'mmtbx/regression/ncs/__init__.py' adding 'mmtbx/regression/ncs/tst_geometry_minimization_ncs_constraints.py' adding 'mmtbx/regression/ncs/tst_minimization_ncs_constraints.py' adding 'mmtbx/regression/ncs/tst_minimization_ncs_constraints2.py' adding 'mmtbx/regression/ncs/tst_minimization_ncs_constraints3.py' adding 'mmtbx/regression/ncs/tst_minimization_ncs_constraints_real_space.py' adding 'mmtbx/regression/ncs/tst_ncs_restraints_group_list.py' adding 'mmtbx/regression/ncs/tst_ncs_search.py' adding 'mmtbx/regression/ncs/tst_ncs_search_flips.py' adding 'mmtbx/regression/ncs/tst_ncs_utils.py' adding 'mmtbx/regression/ncs/tst_restraints.py' adding 'mmtbx/regression/tls/__init__.py' adding 'mmtbx/regression/tls/tst_formula_t_S_10_vs_11_2igd.py' adding 'mmtbx/regression/tls/tst_formula_t_S_10_vs_11_4muy.py' adding 'mmtbx/regression/tls/tst_get_t_scheme.py' adding 'mmtbx/regression/tls/tst_tls.py' adding 'mmtbx/regression/tls/tst_tls_analysis.py' adding 'mmtbx/regression/tls/tst_tls_as_xyz.py' adding 'mmtbx/regression/tls/tst_tls_optimise_amplitudes.py' adding 'mmtbx/regression/tls/tst_tls_refinement_fft.py' adding 'mmtbx/regression/tls/tst_tls_utils.py' adding 'mmtbx/regression/tls/tst_u_tls_vs_u_ens_00.py' adding 'mmtbx/regression/tls/tst_u_tls_vs_u_ens_01.py' adding 'mmtbx/regression/tls/tst_u_tls_vs_u_ens_02.py' adding 'mmtbx/regression/tls/tst_u_tls_vs_u_ens_03.py' adding 'mmtbx/regression/tls/tst_u_tls_vs_u_ens_04.py' adding 'mmtbx/ringer/__init__.py' adding 'mmtbx/ringer/em_rolling.py' adding 'mmtbx/ringer/em_rscc.py' adding 'mmtbx/ringer/em_scoring.py' adding 'mmtbx/ringer/emringer.py' adding 'mmtbx/ringer/tst_em_rscc.py' adding 'mmtbx/ringer/tst_emringer.py' adding 'mmtbx/rotamer/__init__.py' adding 'mmtbx/rotamer/graphics.py' adding 'mmtbx/rotamer/n_dim_table.py' adding 'mmtbx/rotamer/nqh.py' adding 'mmtbx/rotamer/ramachandran_eval.py' adding 'mmtbx/rotamer/ramachandran_eval_deprecated.py' adding 'mmtbx/rotamer/rotamer_eval.py' adding 'mmtbx/rotamer/sidechain_angles.py' adding 'mmtbx/rotamer/tst_geostd_vs_sidechain_angles_props.py' adding 'mmtbx/rotamer/tst_rotamer_eval.py' adding 'mmtbx/rsr/__init__.py' adding 'mmtbx/rsr/tst.py' adding 'mmtbx/scaling/__init__.py' adding 'mmtbx/scaling/absence_likelihood.py' adding 'mmtbx/scaling/absences.py' adding 'mmtbx/scaling/absolute_scaling.py' adding 'mmtbx/scaling/basic_analyses.py' adding 'mmtbx/scaling/bayesian_estimator.py' adding 'mmtbx/scaling/data_statistics.py' adding 'mmtbx/scaling/fa_estimation.py' adding 'mmtbx/scaling/make_param.py' adding 'mmtbx/scaling/massage_twin_detwin_data.py' adding 'mmtbx/scaling/matthews.py' adding 'mmtbx/scaling/mean_f_rms_f.py' adding 'mmtbx/scaling/outlier_plots.py' adding 'mmtbx/scaling/outlier_rejection.py' adding 'mmtbx/scaling/pair_analyses.py' adding 'mmtbx/scaling/plan_sad_experiment.py' adding 'mmtbx/scaling/pre_scale.py' adding 'mmtbx/scaling/random_omit.py' adding 'mmtbx/scaling/relative_scaling.py' adding 'mmtbx/scaling/relative_wilson.py' adding 'mmtbx/scaling/remove_outliers.py' adding 'mmtbx/scaling/sigmaa_estimation.py' adding 'mmtbx/scaling/ta_alpha_beta_calc.py' adding 'mmtbx/scaling/thorough_outlier_test.py' adding 'mmtbx/scaling/tst_absences.py' adding 'mmtbx/scaling/tst_bayesian_estimator.py' adding 'mmtbx/scaling/tst_massage_data.py' adding 'mmtbx/scaling/tst_mean_f_rms_f.py' adding 'mmtbx/scaling/tst_outlier.py' adding 'mmtbx/scaling/tst_plan_sad_experiment.py' adding 'mmtbx/scaling/tst_scaling.py' adding 'mmtbx/scaling/tst_sigmaa.py' adding 'mmtbx/scaling/tst_xtriage.py' adding 'mmtbx/scaling/tst_xtriage_twin_analyses.py' adding 'mmtbx/scaling/twin_analyses.py' adding 'mmtbx/scaling/twmad_scale.py' adding 'mmtbx/scaling/xtriage.py' adding 'mmtbx/secondary_structure/__init__.py' adding 'mmtbx/secondary_structure/find_ss_from_ca.py' adding 'mmtbx/secondary_structure/nucleic_acids.py' adding 'mmtbx/secondary_structure/proteins.py' adding 'mmtbx/secondary_structure/regularize_from_pdb.py' adding 'mmtbx/secondary_structure/secondary_structure_params.py' adding 'mmtbx/secondary_structure/ss_validation.py' adding 'mmtbx/secondary_structure/tst.py' adding 'mmtbx/secondary_structure/tst_insertion_codes.py' adding 'mmtbx/secondary_structure/tst_segid.py' adding 'mmtbx/secondary_structure/utils.py' adding 'mmtbx/secondary_structure/build/__init__.py' adding 'mmtbx/secondary_structure/build/ss_idealization.py' adding 'mmtbx/secondary_structure/build/tst_1.py' adding 'mmtbx/secondary_structure/build/tst_2.py' adding 'mmtbx/secondary_structure/build/tst_3.py' adding 'mmtbx/secondary_structure/build/tst_io.py' adding 'mmtbx/secondary_structure/build/tst_ss_id_ncs.py' adding 'mmtbx/sisa/__init__.py' adding 'mmtbx/sisa/optimize/__init__.py' adding 'mmtbx/sisa/optimize/mod_ga.py' adding 'mmtbx/sisa/optimize/mod_input.py' adding 'mmtbx/sisa/optimize/mod_masks.py' adding 'mmtbx/sisa/optimize/mod_mtz.py' adding 'mmtbx/sisa/optimize/mod_optimize.py' adding 'mmtbx/sisa/optimize/mod_util.py' adding 'mmtbx/solvent/__init__.py' adding 'mmtbx/solvent/ensemble_ordered_solvent.py' adding 'mmtbx/solvent/map_to_water.py' adding 'mmtbx/solvent/ordered_solvent.py' adding 'mmtbx/suitename/__init__.py' adding 'mmtbx/suitename/diangle.py' adding 'mmtbx/suitename/dualparse.py' adding 'mmtbx/suitename/mainchain.py' adding 'mmtbx/suitename/suitealyze.py' adding 'mmtbx/suitename/suitename.py' adding 'mmtbx/suitename/suitenamedefs.py' adding 'mmtbx/suitename/suiteninit.py' adding 'mmtbx/suitename/suiteninput.py' adding 'mmtbx/suitename/suitenout.py' adding 'mmtbx/suitename/suites.py' adding 'mmtbx/suitename/transdent.py' adding 'mmtbx/tls/__init__.py' adding 'mmtbx/tls/analysis.py' adding 'mmtbx/tls/command_line.py' adding 'mmtbx/tls/decompose.py' adding 'mmtbx/tls/ladp.py' adding 'mmtbx/tls/optimise_amplitudes.py' adding 'mmtbx/tls/perm10.py' adding 'mmtbx/tls/perm11.py' adding 'mmtbx/tls/perm12.py' adding 'mmtbx/tls/perm13.py' adding 'mmtbx/tls/perm14.py' adding 'mmtbx/tls/perm15.py' adding 'mmtbx/tls/tls_as_xyz.py' adding 'mmtbx/tls/tools.py' adding 'mmtbx/tls/utils.py' adding 'mmtbx/twinning/__init__.py' adding 'mmtbx/twinning/probabalistic_detwinning.py' adding 'mmtbx/twinning/twin_f_model.py' adding 'mmtbx/utils/__init__.py' adding 'mmtbx/utils/fab_elbow_angle.py' adding 'mmtbx/utils/grid2d.py' adding 'mmtbx/utils/ntc.py' adding 'mmtbx/utils/rotatable_bonds.py' adding 'mmtbx/utils/tst_switch_rotamers.py' adding 'mmtbx/validation/__init__.py' adding 'mmtbx/validation/analyze_peptides.py' adding 'mmtbx/validation/barbed_wire_analysis.py' adding 'mmtbx/validation/cablam.py' adding 'mmtbx/validation/cbd_utils.py' adding 'mmtbx/validation/cbetadev.py' adding 'mmtbx/validation/chain_comparison.py' adding 'mmtbx/validation/clashscore.py' adding 'mmtbx/validation/clashscore2.py' adding 'mmtbx/validation/comparama.py' adding 'mmtbx/validation/comprehensive_residue.py' adding 'mmtbx/validation/convert_lists.py' adding 'mmtbx/validation/datasets.py' adding 'mmtbx/validation/ensembles.py' adding 'mmtbx/validation/experimental.py' adding 'mmtbx/validation/fav_lists.py' adding 'mmtbx/validation/graphics.py' adding 'mmtbx/validation/holton_geometry_validation.py' adding 'mmtbx/validation/ligands.py' adding 'mmtbx/validation/mean_devs_PRO_phi_psi.py' adding 'mmtbx/validation/mean_devs_VAL_THR_ILE_phi_psi.py' adding 'mmtbx/validation/mean_devs_others_phi_psi.py' adding 'mmtbx/validation/model_properties.py' adding 'mmtbx/validation/mp_validate_bonds.py' adding 'mmtbx/validation/omegalyze.py' adding 'mmtbx/validation/phi_psi_2_data.py' adding 'mmtbx/validation/rama_z.py' adding 'mmtbx/validation/ramalyze.py' adding 'mmtbx/validation/restraints.py' adding 'mmtbx/validation/rna_validate.py' adding 'mmtbx/validation/rotalyze.py' adding 'mmtbx/validation/sequence.py' adding 'mmtbx/validation/undowser.py' adding 'mmtbx/validation/undowser2.py' adding 'mmtbx/validation/utils.py' adding 'mmtbx/validation/validate_ligands.py' adding 'mmtbx/validation/waters.py' adding 'mmtbx/validation/molprobity/__init__.py' adding 'mmtbx/validation/molprobity/kinemage_templates.py' adding 'mmtbx/validation/molprobity/mp_geo.py' adding 'mmtbx/validation/molprobity/percentile_clashscore.py' adding 'mmtbx/validation/molprobity/percentile_mpscore.py' adding 'mmtbx/validation/molprobity/probescore_ligand.py' adding 'mmtbx/validation/molprobity/table_from_json.py' adding 'mmtbx/validation/ramachandran/__init__.py' adding 'mmtbx/validation/ramachandran/convert_from_text.py' adding 'mmtbx/validation/regression/__init__.py' adding 'mmtbx/validation/regression/run_restraints.py' adding 'mmtbx/validation/regression/tst_cablam.py' adding 'mmtbx/validation/regression/tst_cablam_2.py' adding 'mmtbx/validation/regression/tst_cbetadev.py' adding 'mmtbx/validation/regression/tst_cbetadev_02.py' adding 'mmtbx/validation/regression/tst_chiral_validation.py' adding 'mmtbx/validation/regression/tst_clashscore.py' adding 'mmtbx/validation/regression/tst_clashscore_2.py' adding 'mmtbx/validation/regression/tst_do_flips_clashscore.py' adding 'mmtbx/validation/regression/tst_experimental.py' adding 'mmtbx/validation/regression/tst_find_region_max_value.py' adding 'mmtbx/validation/regression/tst_hydrogen_addition_clashscore.py' adding 'mmtbx/validation/regression/tst_keep_hydrogens.py' adding 'mmtbx/validation/regression/tst_model_properties.py' adding 'mmtbx/validation/regression/tst_molprobity_1.py' adding 'mmtbx/validation/regression/tst_molprobity_2.py' adding 'mmtbx/validation/regression/tst_molprobity_3.py' adding 'mmtbx/validation/regression/tst_molprobity_4.py' adding 'mmtbx/validation/regression/tst_molprobity_5.py' adding 'mmtbx/validation/regression/tst_molprobity_arguments.py' adding 'mmtbx/validation/regression/tst_mp_geo.py' adding 'mmtbx/validation/regression/tst_mp_geo_chiral_volume_cases.py' adding 'mmtbx/validation/regression/tst_mp_geo_endtoend.py' adding 'mmtbx/validation/regression/tst_mp_validate_bonds.py' adding 'mmtbx/validation/regression/tst_omegalyze.py' adding 'mmtbx/validation/regression/tst_rama_z_01.py' adding 'mmtbx/validation/regression/tst_rama_z_02.py' adding 'mmtbx/validation/regression/tst_ramalyze.py' adding 'mmtbx/validation/regression/tst_ramalyze2.py' adding 'mmtbx/validation/regression/tst_ramalyze_rare.py' adding 'mmtbx/validation/regression/tst_restraints.py' adding 'mmtbx/validation/regression/tst_rna_validate.py' adding 'mmtbx/validation/regression/tst_rotalyze.py' adding 'mmtbx/validation/regression/tst_suitename.py' adding 'mmtbx/validation/regression/tst_symmetry_SS.py' adding 'mmtbx/validation/regression/tst_undowser.py' adding 'mmtbx/validation/regression/tst_undowser2.py' adding 'mmtbx/validation/regression/tst_waters.py' adding 'mmtbx/wwpdb/__init__.py' adding 'mmtbx/wwpdb/rcsb_entry_request.py' adding 'mmtbx/wwpdb/rcsb_web_services.py' adding 'mmtbx/wwpdb/tst_rcsb_entry_request.py' adding 'mmtbx/wwpdb/tst_rcsb_web_services.py' adding 'omptbx/__init__.py' adding 'omptbx/tst.py' adding 'qttbx/__init__.py' adding 'qttbx/phil.py' adding 'qttbx/viewers/__init__.py' adding 'qttbx/viewers/chimerax.py' adding 'rstbx/__init__.py' adding 'rstbx/run_tests.py' adding 'rstbx/utils.py' adding 'rstbx/apps/__init__.py' adding 'rstbx/apps/dual_resolution_helpers.py' adding 'rstbx/apps/slip_helpers.py' adding 'rstbx/apps/spot_markup.py' adding 'rstbx/apps/stills/__init__.py' adding 'rstbx/apps/stills/deltapsi_refinement_preceding_integration.py' adding 'rstbx/apps/stills/dials_refinement_preceding_integration.py' adding 'rstbx/apps/stills/simple_integration.py' adding 'rstbx/apps/stills/stills_integration.py' adding 'rstbx/apps/stills/util.py' adding 'rstbx/array_family/__init__.py' adding 'rstbx/array_family/flex.py' adding 'rstbx/bandpass/__init__.py' adding 'rstbx/bandpass/simulated_annealing.py' adding 'rstbx/bpcx/__init__.py' adding 'rstbx/bpcx/compare_mosflm_xds.py' adding 'rstbx/bpcx/ersatz_misset.py' adding 'rstbx/bpcx/uc1_2.py' adding 'rstbx/bpcx/uc1_2_positions.py' adding 'rstbx/bpcx/uc1_2_positions_idx.py' adding 'rstbx/bpcx/uc1_2_validate.py' adding 'rstbx/bpcx/uc1_2a.py' adding 'rstbx/bpcx/detector_model/__init__.py' adding 'rstbx/bpcx/detector_model/detector.py' adding 'rstbx/bpcx/detector_model/instrument_specifics.py' adding 'rstbx/bpcx/detector_model/tst_detector_model.py' adding 'rstbx/cftbx/__init__.py' adding 'rstbx/cftbx/coordinate_frame_converter.py' adding 'rstbx/cftbx/coordinate_frame_helpers.py' adding 'rstbx/cftbx/tst_coordinate_frame_converter.py' adding 'rstbx/command_line/__init__.py' adding 'rstbx/command_line/example_viewer.py' adding 'rstbx/command_line/index.py' adding 'rstbx/command_line/simage.create.py' adding 'rstbx/command_line/simage.explore_completeness.py' adding 'rstbx/command_line/simage.solver.py' adding 'rstbx/command_line/simage.wx_display.py' adding 'rstbx/command_line/slip_viewer.py' adding 'rstbx/command_line/viewer.py' adding 'rstbx/detectors/__init__.py' adding 'rstbx/detectors/silicon.py' adding 'rstbx/dials_core/__init__.py' adding 'rstbx/dials_core/integration_core.py' adding 'rstbx/diffraction/__init__.py' adding 'rstbx/diffraction/tst_ewald_sphere.py' adding 'rstbx/diffraction/tst_partial_derivatives.py' adding 'rstbx/diffraction/tst_predict.py' adding 'rstbx/diffraction/fastbragg/__init__.py' adding 'rstbx/diffraction/fastbragg/tst_bragg_minimal.py' adding 'rstbx/diffraction/fastbragg/tst_utils_clustering.py' adding 'rstbx/dps_core/__init__.py' adding 'rstbx/dps_core/basis_choice.py' adding 'rstbx/dps_core/cell_assessment.py' adding 'rstbx/dps_core/constrainment.py' adding 'rstbx/dps_core/lepage.py' adding 'rstbx/dps_core/sampling.py' adding 'rstbx/dps_core/tst_iotbx_converter.py' adding 'rstbx/dps_core/zuoreduction.py' adding 'rstbx/indexing/__init__.py' adding 'rstbx/indexing/do_index.py' adding 'rstbx/indexing/tst_auto_monoscan.py' adding 'rstbx/indexing/tst_dataset1.py' adding 'rstbx/indexing_api/__init__.py' adding 'rstbx/indexing_api/basis_choice.py' adding 'rstbx/indexing_api/force_cell.py' adding 'rstbx/indexing_api/lattice.py' adding 'rstbx/indexing_api/nearest_neighbor.py' adding 'rstbx/indexing_api/outlier_detection.py' adding 'rstbx/indexing_api/outlier_procedure.py' adding 'rstbx/indexing_api/sampling.py' adding 'rstbx/indexing_api/test_dps.py' adding 'rstbx/indexing_api/tools.py' adding 'rstbx/new_horizons/__init__.py' adding 'rstbx/new_horizons/index.py' adding 'rstbx/new_horizons/oscillation_shots.py' adding 'rstbx/new_horizons/pixel_spread.py' adding 'rstbx/new_horizons/speckfinder.py' adding 'rstbx/new_horizons/spot_shape.py' adding 'rstbx/new_horizons/stats_index.py' adding 'rstbx/outlier_spots/__init__.py' adding 'rstbx/outlier_spots/fit_distribution.py' adding 'rstbx/phil/__init__.py' adding 'rstbx/phil/phil_preferences.py' adding 'rstbx/phil/preferences.py' adding 'rstbx/phil/scope.py' adding 'rstbx/simage/__init__.py' adding 'rstbx/simage/create.py' adding 'rstbx/simage/explore_completeness.py' adding 'rstbx/simage/integrate_crude.py' adding 'rstbx/simage/refine_uc_cr.py' adding 'rstbx/simage/run_labelit_index.py' adding 'rstbx/simage/run_spotfinder.py' adding 'rstbx/simage/solver.py' adding 'rstbx/simage/tst.py' adding 'rstbx/simage/wx_display.py' adding 'rstbx/simulation/__init__.py' adding 'rstbx/simulation/constants.py' adding 'rstbx/simulation/sim_pdf.py' adding 'rstbx/simulation/sim_utils.py' adding 'rstbx/simulation/tst_xfel1_simple.py' adding 'rstbx/slip_viewer/__init__.py' adding 'rstbx/slip_viewer/calibration_frame.py' adding 'rstbx/slip_viewer/example_frame_plugin_hidden.py' adding 'rstbx/slip_viewer/frame.py' adding 'rstbx/slip_viewer/pyslip.py' adding 'rstbx/slip_viewer/ring_frame.py' adding 'rstbx/slip_viewer/score_frame.py' adding 'rstbx/slip_viewer/slip_display.py' adding 'rstbx/slip_viewer/slip_viewer_image_factory.py' adding 'rstbx/slip_viewer/tile_generation.py' adding 'rstbx/slip_viewer/uc_frame.py' adding 'rstbx/sublattice_support/__init__.py' adding 'rstbx/sublattice_support/change_basis.py' adding 'rstbx/sublattice_support/tst_sublattice.py' adding 'rstbx/symmetry/__init__.py' adding 'rstbx/symmetry/sgtbx_adaptor.py' adding 'rstbx/symmetry/subgroup.py' adding 'rstbx/symmetry/constraints/__init__.py' adding 'rstbx/symmetry/constraints/g_gradients.py' adding 'rstbx/symmetry/constraints/parameter_reduction.py' adding 'rstbx/viewer/__init__.py' adding 'rstbx/viewer/calibration.py' adding 'rstbx/viewer/calibration_frame.py' adding 'rstbx/viewer/controls.py' adding 'rstbx/viewer/dataset.py' adding 'rstbx/viewer/display.py' adding 'rstbx/viewer/drivers.py' adding 'rstbx/viewer/frame.py' adding 'rstbx/viewer/indexing.py' adding 'rstbx/viewer/integration.py' adding 'rstbx/viewer/pixels3d.py' adding 'rstbx/viewer/processing.py' adding 'rstbx/viewer/results_base.py' adding 'rstbx/viewer/spotfinder_frame.py' adding 'rstbx/viewer/spotfinder_wrap.py' adding 'rstbx/viewer/tst.py' adding 'scitbx/__init__.py' adding 'scitbx/cross_entropy.py' adding 'scitbx/cubicle_neighbors.py' adding 'scitbx/differential_evolution.py' adding 'scitbx/direct_search_simulated_annealing.py' adding 'scitbx/fftpack.py' adding 'scitbx/genetic_algorithm_with_mp.py' adding 'scitbx/golden_section_search.py' adding 'scitbx/lbfgsb.py' adding 'scitbx/libtbx_refresh.py' adding 'scitbx/minimizers.py' adding 'scitbx/minpack.py' adding 'scitbx/r3_utils.py' adding 'scitbx/regular_grid_on_unit_sphere.py' adding 'scitbx/restraints.py' adding 'scitbx/run_tests.py' adding 'scitbx/simplex.py' adding 'scitbx/smoothing.py' adding 'scitbx/array_family/__init__.py' adding 'scitbx/array_family/flex.py' adding 'scitbx/array_family/shared.py' adding 'scitbx/array_family/accessors/__init__.py' adding 'scitbx/array_family/boost_python/__init__.py' adding 'scitbx/array_family/boost_python/regression_test.py' adding 'scitbx/array_family/boost_python/tst_cost_of_m_handle_in_af_shared.py' adding 'scitbx/array_family/boost_python/tst_flex.py' adding 'scitbx/array_family/boost_python/tst_flex_argument_passing.py' adding 'scitbx/array_family/boost_python/tst_integer_offsets_vs_pointers.py' adding 'scitbx/array_family/boost_python/tst_numpy_bridge.py' adding 'scitbx/array_family/boost_python/tst_shared.py' adding 'scitbx/array_family/boost_python/tst_smart_selection.py' adding 'scitbx/array_family/detail/__init__.py' adding 'scitbx/boost_python/__init__.py' adding 'scitbx/command_line/__init__.py' adding 'scitbx/command_line/apply_tapenade_hints.py' adding 'scitbx/command_line/generate_error_h.py' adding 'scitbx/command_line/histogram.py' adding 'scitbx/command_line/show_exp_times.py' adding 'scitbx/command_line/show_sizes.py' adding 'scitbx/command_line/unicode_examples.py' adding 'scitbx/dtmin/__init__.py' adding 'scitbx/dtmin/auxiliary.py' adding 'scitbx/dtmin/bounds.py' adding 'scitbx/dtmin/compulsory.py' adding 'scitbx/dtmin/min_logging.py' adding 'scitbx/dtmin/minimizer.py' adding 'scitbx/dtmin/optional.py' adding 'scitbx/dtmin/realsymmetricpseudoinverse.py' adding 'scitbx/dtmin/refinebase.py' adding 'scitbx/dtmin/reparams.py' adding 'scitbx/dtmin/twisted_gaussian.py' adding 'scitbx/dtmin/regression/__init__.py' adding 'scitbx/dtmin/regression/tst_dtmin_basic.py' adding 'scitbx/dtmin/regression/tst_dtmin_booth.py' adding 'scitbx/dtmin/regression/tst_dtmin_twisted.py' adding 'scitbx/error/__init__.py' adding 'scitbx/error/tst_error.py' adding 'scitbx/examples/__init__.py' adding 'scitbx/examples/bootstrap.py' adding 'scitbx/examples/chebyshev_lsq_example.py' adding 'scitbx/examples/flex_array_loops.py' adding 'scitbx/examples/flex_grid.py' adding 'scitbx/examples/functions.py' adding 'scitbx/examples/immoptibox_ports.py' adding 'scitbx/examples/integrating_a_weighted_sinc_function.py' adding 'scitbx/examples/lbfgs_linear_least_squares_fit.py' adding 'scitbx/examples/lbfgs_recipe.py' adding 'scitbx/examples/minimizer_comparisons.py' adding 'scitbx/examples/principal_axes_of_inertia.py' adding 'scitbx/examples/rigid_body_refinement_core.py' adding 'scitbx/examples/bevington/__init__.py' adding 'scitbx/examples/bevington/silver.py' adding 'scitbx/glmtbx/__init__.py' adding 'scitbx/glmtbx/boost_python/__init__.py' adding 'scitbx/glmtbx/tests/__init__.py' adding 'scitbx/glmtbx/tests/tst.py' adding 'scitbx/graph/__init__.py' adding 'scitbx/graph/rigidity.py' adding 'scitbx/graph/rigidity_matrix_symbolic.py' adding 'scitbx/graph/tardy_tree.py' adding 'scitbx/graph/test_cases_tardy_pdb.py' adding 'scitbx/graph/tst_rigidity.py' adding 'scitbx/graph/tst_tardy_tree.py' adding 'scitbx/graph/tst_tardy_tree_find_paths.py' adding 'scitbx/graph/tst_utils.py' adding 'scitbx/graph/utils.py' adding 'scitbx/graphics_utils/__init__.py' adding 'scitbx/graphics_utils/tst.py' adding 'scitbx/iso_surface/__init__.py' adding 'scitbx/iso_surface/tst_iso_surface.py' adding 'scitbx/lbfgs/__init__.py' adding 'scitbx/lbfgs/tst_curvatures.py' adding 'scitbx/lbfgs/tst_ext.py' adding 'scitbx/lbfgs/tst_func_free_line_search.py' adding 'scitbx/lbfgs/tst_lbfgs_fem.py' adding 'scitbx/lbfgs/tst_mpi_split_evaluator.py' adding 'scitbx/lbfgs/dev/__init__.py' adding 'scitbx/lbfgs/dev/run.py' adding 'scitbx/lbfgs/dev/twisted_gaussian.py' adding 'scitbx/linalg/__init__.py' adding 'scitbx/linalg/eigensystem.py' adding 'scitbx/linalg/ext.py' adding 'scitbx/linalg/householder.py' adding 'scitbx/linalg/svd.py' adding 'scitbx/linalg/boost_python/__init__.py' adding 'scitbx/linalg/tests/__init__.py' adding 'scitbx/linalg/tests/tst_cholesky.py' adding 'scitbx/linalg/tests/tst_eigensystem.py' adding 'scitbx/linalg/tests/tst_lapack_dsyev.py' adding 'scitbx/linalg/tests/tst_lapack_svd.py' adding 'scitbx/linalg/tests/tst_matrix.py' adding 'scitbx/linalg/tests/tst_svd.py' adding 'scitbx/line_search/__init__.py' adding 'scitbx/lstbx/__init__.py' adding 'scitbx/lstbx/normal_eqns.py' adding 'scitbx/lstbx/normal_eqns_solving.py' adding 'scitbx/lstbx/benchmarks/__init__.py' adding 'scitbx/lstbx/boost_python/__init__.py' adding 'scitbx/lstbx/tests/__init__.py' adding 'scitbx/lstbx/tests/test_problems.py' adding 'scitbx/lstbx/tests/tst_normal_equations.py' adding 'scitbx/math/__init__.py' adding 'scitbx/math/besselk.py' adding 'scitbx/math/breakpoint.py' adding 'scitbx/math/chebyshev_lsq_fit.py' adding 'scitbx/math/clustering.py' adding 'scitbx/math/cubic_spline.py' adding 'scitbx/math/curve_fitting.py' adding 'scitbx/math/des_3_100_13.py' adding 'scitbx/math/des_3_240_21.py' adding 'scitbx/math/distributions.py' adding 'scitbx/math/euler_angles.py' adding 'scitbx/math/ext.py' adding 'scitbx/math/farey.py' adding 'scitbx/math/fit_peak.py' adding 'scitbx/math/fit_quadratic_function.py' adding 'scitbx/math/fliege_mayer_400.py' adding 'scitbx/math/fliege_mayer_900.py' adding 'scitbx/math/fliege_mayer_900_ylm.py' adding 'scitbx/math/gaussian.py' adding 'scitbx/math/gaussian_fit.py' adding 'scitbx/math/gumbel.py' adding 'scitbx/math/incremental_SO3_sampling.py' adding 'scitbx/math/lefebvre.py' adding 'scitbx/math/minimum_covering_ellipsoid.py' adding 'scitbx/math/multiple_superposition.py' adding 'scitbx/math/periodogram.py' adding 'scitbx/math/scale_curves.py' adding 'scitbx/math/sieve_of_eratosthenes.py' adding 'scitbx/math/so3_lie_algebra.py' adding 'scitbx/math/spe.py' adding 'scitbx/math/sphere_sphere_intersection.py' adding 'scitbx/math/superpose.py' adding 'scitbx/math/tst_2d_zernike.py' adding 'scitbx/math/tst_bessel_zeros.py' adding 'scitbx/math/tst_multivariate_moments.py' adding 'scitbx/math/tst_so3_lie_algebra.py' adding 'scitbx/math/tst_undirected_graph.py' adding 'scitbx/math/tst_zernike.py' adding 'scitbx/math/tst_zernike_mom.py' adding 'scitbx/math/undirected_graph.py' adding 'scitbx/math/zernike_align_fft.py' adding 'scitbx/math/boost_python/__init__.py' adding 'scitbx/math/dev/__init__.py' adding 'scitbx/math/erf/__init__.py' adding 'scitbx/math/tests/__init__.py' adding 'scitbx/math/tests/tst_angle_derivative.py' adding 'scitbx/math/tests/tst_bessel.py' adding 'scitbx/math/tests/tst_clustering.py' adding 'scitbx/math/tests/tst_cubic_equation.py' adding 'scitbx/math/tests/tst_curve_fitting.py' adding 'scitbx/math/tests/tst_dmatrix.py' adding 'scitbx/math/tests/tst_error_propagation_matrix_inverse.py' adding 'scitbx/math/tests/tst_euler_angles.py' adding 'scitbx/math/tests/tst_exp_functions.py' adding 'scitbx/math/tests/tst_fit_peak.py' adding 'scitbx/math/tests/tst_fit_quadratic_function.py' adding 'scitbx/math/tests/tst_g_function.py' adding 'scitbx/math/tests/tst_gaussian.py' adding 'scitbx/math/tests/tst_gaussian_fit_1d_analytical.py' adding 'scitbx/math/tests/tst_gcd.py' adding 'scitbx/math/tests/tst_halton.py' adding 'scitbx/math/tests/tst_line_search.py' adding 'scitbx/math/tests/tst_math.py' adding 'scitbx/math/tests/tst_minimum_covering_ellipsoid.py' adding 'scitbx/math/tests/tst_orthonormal_basis.py' adding 'scitbx/math/tests/tst_periodogram.py' adding 'scitbx/math/tests/tst_quadrature.py' adding 'scitbx/math/tests/tst_r3_rotation.py' adding 'scitbx/math/tests/tst_resample.py' adding 'scitbx/math/tests/tst_similarity_indices.py' adding 'scitbx/math/tests/tst_superpose.py' adding 'scitbx/math/tests/tst_tetrahedron.py' adding 'scitbx/math/tests/tst_uniform_rotation_matrix.py' adding 'scitbx/math/tests/tst_weighted_correlation.py' adding 'scitbx/matrix/__init__.py' adding 'scitbx/matrix/row_echelon.py' adding 'scitbx/matrix/tests/__init__.py' adding 'scitbx/matrix/tests/tst_householder.py' adding 'scitbx/matrix/tests/tst_row_echelon.py' adding 'scitbx/misc/__init__.py' adding 'scitbx/python_utils/__init__.py' adding 'scitbx/python_utils/command_line.py' adding 'scitbx/python_utils/dicts.py' adding 'scitbx/python_utils/graph_tools.py' adding 'scitbx/python_utils/misc.py' adding 'scitbx/python_utils/random_transform.py' adding 'scitbx/python_utils/robust_statistics.py' adding 'scitbx/python_utils/signal_utils.py' adding 'scitbx/python_utils/tst_graph.py' adding 'scitbx/python_utils/tst_random_transform.py' adding 'scitbx/python_utils/tst_robust.py' adding 'scitbx/random/__init__.py' adding 'scitbx/random/boost_python/__init__.py' adding 'scitbx/random/tests/__init__.py' adding 'scitbx/random/tests/tst_random.py' adding 'scitbx/rigid_body/__init__.py' adding 'scitbx/rigid_body/tst.py' adding 'scitbx/rigid_body/essence/__init__.py' adding 'scitbx/rigid_body/essence/body_lib.py' adding 'scitbx/rigid_body/essence/featherstone.py' adding 'scitbx/rigid_body/essence/joint_lib.py' adding 'scitbx/rigid_body/essence/make_bundles.py' adding 'scitbx/rigid_body/essence/spatial_lib.py' adding 'scitbx/rigid_body/essence/tardy.py' adding 'scitbx/rigid_body/essence/tst_basic.py' adding 'scitbx/rigid_body/essence/tst_energy_plots.py' adding 'scitbx/rigid_body/essence/tst_tardy.py' adding 'scitbx/rigid_body/essence/wx_tardy.py' adding 'scitbx/rigid_body/proto/__init__.py' adding 'scitbx/rigid_body/proto/featherstone.py' adding 'scitbx/rigid_body/proto/free_motion_reference_impl.py' adding 'scitbx/rigid_body/proto/joint_lib.py' adding 'scitbx/rigid_body/proto/test_simulation.py' adding 'scitbx/rigid_body/proto/test_utils.py' adding 'scitbx/rigid_body/proto/tst_featherstone.py' adding 'scitbx/rigid_body/proto/tst_free_motion.py' adding 'scitbx/rigid_body/proto/tst_free_motion_hard.py' adding 'scitbx/rigid_body/proto/tst_joint_lib.py' adding 'scitbx/rigid_body/proto/tst_molecules.py' adding 'scitbx/rigid_body/proto/tst_singular.py' adding 'scitbx/rigid_body/proto/tst_spherical_refinement.py' adding 'scitbx/rigid_body/proto/utils.py' adding 'scitbx/rigid_body/proto/wx_free_motion.py' adding 'scitbx/rigid_body/proto/wx_joint_lib.py' adding 'scitbx/rigid_body/proto/wx_molecules.py' adding 'scitbx/serialization/__init__.py' adding 'scitbx/slatec/__init__.py' adding 'scitbx/source_generators/__init__.py' adding 'scitbx/source_generators/flex_fwd_h.py' adding 'scitbx/source_generators/lbfgs_fem.py' adding 'scitbx/source_generators/utils.py' adding 'scitbx/source_generators/array_family/__init__.py' adding 'scitbx/source_generators/array_family/generate_algebras.py' adding 'scitbx/source_generators/array_family/generate_all.py' adding 'scitbx/source_generators/array_family/generate_apply.py' adding 'scitbx/source_generators/array_family/generate_operator_functors.py' adding 'scitbx/source_generators/array_family/generate_operator_traits_builtin.py' adding 'scitbx/source_generators/array_family/generate_reductions.py' adding 'scitbx/source_generators/array_family/generate_std_imports.py' adding 'scitbx/source_generators/array_family/operator_functor_info.py' adding 'scitbx/sparse/__init__.py' adding 'scitbx/sparse/boost_python/__init__.py' adding 'scitbx/sparse/tests/__init__.py' adding 'scitbx/sparse/tests/tst_lu_factorization.py' adding 'scitbx/sparse/tests/tst_sparse.py' adding 'scitbx/stdlib/__init__.py' adding 'scitbx/stl/__init__.py' adding 'scitbx/stl/map.py' adding 'scitbx/stl/set.py' adding 'scitbx/stl/tst_map.py' adding 'scitbx/stl/tst_set.py' adding 'scitbx/stl/tst_vector.py' adding 'scitbx/stl/vector.py' adding 'scitbx/suffixtree/__init__.py' adding 'scitbx/suffixtree/single.py' adding 'scitbx/suffixtree/boost_python/__init__.py' adding 'scitbx/suffixtree/test/__init__.py' adding 'scitbx/suffixtree/test/tst_single.py' adding 'scitbx/tests/__init__.py' adding 'scitbx/tests/differential_evolution.py' adding 'scitbx/tests/direct_search_simulated_annealing.py' adding 'scitbx/tests/golden_section_search.py' adding 'scitbx/tests/simplex.py' adding 'scitbx/tests/tst_basic.py' adding 'scitbx/tests/tst_cubicle_neighbors.py' adding 'scitbx/tests/tst_genetic_algorithm_with_mp.py' adding 'scitbx/tests/tst_minimizer_lbfgs_general.py' adding 'scitbx/tests/tst_r3_utils.py' adding 'scitbx/tests/tst_regular_grid_on_unit_sphere.py' adding 'scitbx/tests/tst_smoothing.py' adding 'scitbx/wigner/__init__.py' adding 'scitbx/wigner/tst_wigner3j.py' adding 'serialtbx/__init__.py' adding 'serialtbx/detector/__init__.py' adding 'serialtbx/detector/cspad.py' adding 'serialtbx/detector/jungfrau.py' adding 'serialtbx/detector/rayonix.py' adding 'serialtbx/detector/xtc.py' adding 'serialtbx/detector/legacy_metrology/__init__.py' adding 'serialtbx/detector/legacy_metrology/cspad_detector.py' adding 'serialtbx/detector/legacy_metrology/generic_detector.py' adding 'serialtbx/detector/legacy_metrology/metrology.py' adding 'serialtbx/mono_simulation/__init__.py' adding 'serialtbx/mono_simulation/max_like.py' adding 'serialtbx/mono_simulation/util.py' adding 'serialtbx/util/__init__.py' adding 'serialtbx/util/construct_frame.py' adding 'serialtbx/util/energy_scan_notch_finder.py' adding 'serialtbx/util/time.py' adding 'simtbx/__init__.py' adding 'simtbx/run_tests.py' adding 'simtbx/diffBragg/__init__.py' adding 'simtbx/diffBragg/attr_list.py' adding 'simtbx/diffBragg/device.py' adding 'simtbx/diffBragg/ensemble_refine_launcher.py' adding 'simtbx/diffBragg/hopper_ensemble_utils.py' adding 'simtbx/diffBragg/hopper_io.py' adding 'simtbx/diffBragg/hopper_utils.py' adding 'simtbx/diffBragg/mpi_logger.py' adding 'simtbx/diffBragg/parameter_errors.py' adding 'simtbx/diffBragg/phil.py' adding 'simtbx/diffBragg/prep_stage2_input.py' adding 'simtbx/diffBragg/psf.py' adding 'simtbx/diffBragg/stage_two_utils.py' adding 'simtbx/diffBragg/utils.py' adding 'simtbx/diffBragg/refiners/__init__.py' adding 'simtbx/diffBragg/refiners/base_refiner.py' adding 'simtbx/diffBragg/refiners/geometry.py' adding 'simtbx/diffBragg/refiners/parameters.py' adding 'simtbx/diffBragg/refiners/stage_two_refiner.py' adding 'simtbx/diffBragg/refiners/crystal_systems/__init__.py' adding 'simtbx/diffBragg/refiners/crystal_systems/hexagonal.py' adding 'simtbx/diffBragg/refiners/crystal_systems/manager.py' adding 'simtbx/diffBragg/refiners/crystal_systems/monoclinic.py' adding 'simtbx/diffBragg/refiners/crystal_systems/orthorhombic.py' adding 'simtbx/diffBragg/refiners/crystal_systems/tetragonal.py' adding 'simtbx/gpu/__init__.py' adding 'simtbx/gpu/tst_exafel_api.py' adding 'simtbx/gpu/tst_gpu_multisource_background.py' adding 'simtbx/gpu/tst_shoeboxes.py' adding 'simtbx/kokkos/__init__.py' adding 'simtbx/kokkos/tst_kokkos_lib.py' adding 'simtbx/modeling/FormatHDF5AttributeGeometry.py' adding 'simtbx/modeling/__init__.py' adding 'simtbx/modeling/forward_models.py' adding 'simtbx/modeling/predictions.py' adding 'simtbx/nanoBragg/__init__.py' adding 'simtbx/nanoBragg/anisotropic_mosaicity.py' adding 'simtbx/nanoBragg/nanoBragg_beam.py' adding 'simtbx/nanoBragg/nanoBragg_crystal.py' adding 'simtbx/nanoBragg/nanoBragg_gui_dialogs.py' adding 'simtbx/nanoBragg/nanoBragg_gui_frames.py' adding 'simtbx/nanoBragg/nanoBragg_gui_init.py' adding 'simtbx/nanoBragg/nanoBragg_input.py' adding 'simtbx/nanoBragg/nanoBragg_threads.py' adding 'simtbx/nanoBragg/sim_data.py' adding 'simtbx/nanoBragg/tst_anisotropic_mosaicity.py' adding 'simtbx/nanoBragg/tst_gauss_argchk.py' adding 'simtbx/nanoBragg/tst_gaussian_mosaicity.py' adding 'simtbx/nanoBragg/tst_gaussian_mosaicity2.py' adding 'simtbx/nanoBragg/tst_multisource_background.py' adding 'simtbx/nanoBragg/tst_nanoBragg_basic.py' adding 'simtbx/nanoBragg/tst_nanoBragg_cbf_write.py' adding 'simtbx/nanoBragg/tst_nanoBragg_minimal.py' adding 'simtbx/nanoBragg/tst_nanoBragg_mosaic.py' adding 'simtbx/nanoBragg/tst_nanoBragg_multipanel.py' adding 'simtbx/nanoBragg/tst_nanoBragg_pilatus.py' adding 'simtbx/nanoBragg/utils.py' adding 'simtbx/pixel/__init__.py' adding 'smtbx/__init__.py' adding 'smtbx/development.py' adding 'smtbx/libtbx_refresh.py' adding 'smtbx/run_tests.py' adding 'smtbx/utils.py' adding 'smtbx/ab_initio/__init__.py' adding 'smtbx/ab_initio/charge_flipping.py' adding 'smtbx/ab_initio/tests/__init__.py' adding 'smtbx/ab_initio/tests/tst_ab_initio_ext.py' adding 'smtbx/ab_initio/tests/tst_charge_flipping.py' adding 'smtbx/absolute_structure/__init__.py' adding 'smtbx/array_family/__init__.py' adding 'smtbx/command_line/__init__.py' adding 'smtbx/command_line/absolute_structure.py' adding 'smtbx/command_line/anom_refine.py' adding 'smtbx/command_line/benchmark_refinement.py' adding 'smtbx/command_line/masks.py' adding 'smtbx/command_line/refine.py' adding 'smtbx/masks/__init__.py' adding 'smtbx/refinement/__init__.py' adding 'smtbx/refinement/least_squares.py' adding 'smtbx/refinement/weighting_schemes.py' adding 'smtbx/refinement/constraints/__init__.py' adding 'smtbx/refinement/constraints/adp.py' adding 'smtbx/refinement/constraints/all.py' adding 'smtbx/refinement/constraints/fpfdp.py' adding 'smtbx/refinement/constraints/occupancy.py' adding 'smtbx/refinement/constraints/rigid.py' adding 'smtbx/refinement/constraints/site.py' adding 'smtbx/refinement/constraints/geometrical/__init__.py' adding 'smtbx/refinement/constraints/geometrical/all.py' adding 'smtbx/refinement/constraints/geometrical/hydrogens.py' adding 'smtbx/refinement/constraints/tests/__init__.py' adding 'smtbx/refinement/constraints/tests/tst_constrained_structure.py' adding 'smtbx/refinement/constraints/tests/tst_direction.py' adding 'smtbx/refinement/constraints/tests/tst_disorder.py' adding 'smtbx/refinement/constraints/tests/tst_lbfgs.py' adding 'smtbx/refinement/constraints/tests/tst_occupancies.py' adding 'smtbx/refinement/constraints/tests/tst_reparametrisation.py' adding 'smtbx/refinement/constraints/tests/tst_rigid.py' adding 'smtbx/refinement/constraints/tests/tst_same_group.py' adding 'smtbx/refinement/restraints/__init__.py' adding 'smtbx/refinement/restraints/adp_restraints.py' adding 'smtbx/refinement/restraints/origin_fixing_restraints.py' adding 'smtbx/regression/__init__.py' adding 'smtbx/regression/tst_commandline_anomrefine.py' adding 'smtbx/regression/tst_commandline_refine.py' adding 'smtbx/regression/test_data/__init__.py' adding 'smtbx/source_generators/__init__.py' adding 'smtbx/source_generators/flex_fwd_h.py' adding 'smtbx/stl/__init__.py' adding 'smtbx/stl/map.py' adding 'smtbx/structure_factors/__init__.py' adding 'smtbx/structure_factors/direct/__init__.py' adding 'spotfinder/__init__.py' adding 'spotfinder/exception.py' adding 'spotfinder/run_tests.py' adding 'spotfinder/applications/__init__.py' adding 'spotfinder/applications/image_viewer.py' adding 'spotfinder/applications/practical_heuristics.py' adding 'spotfinder/applications/signal_strength.py' adding 'spotfinder/applications/stats_distl.py' adding 'spotfinder/applications/wrappers.py' adding 'spotfinder/applications/heuristic_tbx/__init__.py' adding 'spotfinder/applications/heuristic_tbx/ice2.py' adding 'spotfinder/applications/heuristic_tbx/ice_nztt.py' adding 'spotfinder/applications/heuristic_tbx/method2_resolution.py' adding 'spotfinder/applications/heuristic_tbx/spotreporter.py' adding 'spotfinder/applications/xfel/__init__.py' adding 'spotfinder/applications/xfel/correction_vector_plot.py' adding 'spotfinder/applications/xfel/cxi_phil.py' adding 'spotfinder/applications/xfel/cxi_run3.py' adding 'spotfinder/array_family/__init__.py' adding 'spotfinder/array_family/flex.py' adding 'spotfinder/command_line/__init__.py' adding 'spotfinder/command_line/find_active_area.py' adding 'spotfinder/command_line/image_viewer.py' adding 'spotfinder/command_line/mp_spotfinder_server_read_file.py' adding 'spotfinder/command_line/signal_strength.py' adding 'spotfinder/command_line/sweep_strength.py' adding 'spotfinder/command_line/thin_client.py' adding 'spotfinder/core_toolbox/__init__.py' adding 'spotfinder/core_toolbox/close_spots_detail.py' adding 'spotfinder/diffraction/__init__.py' adding 'spotfinder/diffraction/geometry.py' adding 'spotfinder/diffraction/imagefiles.py' adding 'spotfinder/dxtbx_toolbox/__init__.py' adding 'spotfinder/dxtbx_toolbox/practical_heuristics.py' adding 'spotfinder/math_support/__init__.py' adding 'spotfinder/math_support/sphere_formulae.py' adding 'spotfinder/servers/__init__.py' adding 'spotfinder/servers/adsc_client.py' adding 'spotfinder/servers/apache.py' adding 'spotfinder/servers/apache_bcsb.py' adding 'spotfinder/servers/apache_dials.py' adding 'spotfinder/servers/apache_utils.py' adding 'spotfinder/servers/bcsb_client_example.py' adding 'spotfinder/servers/general_client_example.py' adding 'spotfinder/servers/mp_spotfinder_server_is_alive.py' adding 'spotfinder/servers/mp_spotfinder_server_read_file.py' adding 'spotfinder/servers/multipart_encoder.py' adding 'spotfinder/servers/pilatus_client.py' adding 'spotfinder/servers/specific_client_example.py' adding 'spotfinder/servers/spotfinder_server_client_push.py' adding 'spotfinder/servers/spotfinder_server_read_file.py' adding 'spotfinder/servers/thin_client.py' adding 'wxtbx/__init__.py' adding 'wxtbx/adp_statistics.py' adding 'wxtbx/anomalous_scattering.py' adding 'wxtbx/app.py' adding 'wxtbx/b_plot.py' adding 'wxtbx/bitmaps.py' adding 'wxtbx/browser.py' adding 'wxtbx/checklistctrl.py' adding 'wxtbx/custom_restraints.py' adding 'wxtbx/ensemble_validation.py' adding 'wxtbx/errors.py' adding 'wxtbx/heavy_atoms.py' adding 'wxtbx/icons.py' adding 'wxtbx/info_panels.py' adding 'wxtbx/layout.py' adding 'wxtbx/listeditor.py' adding 'wxtbx/metallicbutton.py' adding 'wxtbx/misc_dialogs.py' adding 'wxtbx/monitor.py' adding 'wxtbx/mtz_dump.py' adding 'wxtbx/path_dialogs.py' adding 'wxtbx/pdb_editor.py' adding 'wxtbx/polygon.py' adding 'wxtbx/polygon_db_viewer.py' adding 'wxtbx/process_control.py' adding 'wxtbx/qstat_view.py' adding 'wxtbx/segmentedctrl.py' adding 'wxtbx/sequence_view.py' adding 'wxtbx/symmetry_dialog.py' adding 'wxtbx/tables.py' adding 'wxtbx/utils.py' adding 'wxtbx/windows.py' adding 'wxtbx/wx4_compatibility.py' adding 'wxtbx/xtriage.py' adding 'wxtbx/command_line/__init__.py' adding 'wxtbx/command_line/anomalous_differences_histogram.py' adding 'wxtbx/command_line/b_plot.py' adding 'wxtbx/command_line/inspect_r_free_flags.py' adding 'wxtbx/command_line/loggraph.py' adding 'wxtbx/command_line/pdb_editor.py' adding 'wxtbx/command_line/pdb_statistics.py' adding 'wxtbx/command_line/plan_sad_experiment.py' adding 'wxtbx/command_line/plot_anomalous_scattering.py' adding 'wxtbx/command_line/show_file_info.py' adding 'wxtbx/command_line/wxpython.py' adding 'wxtbx/command_line/xtriage.py' adding 'wxtbx/phil_controls/__init__.py' adding 'wxtbx/phil_controls/array_label.py' adding 'wxtbx/phil_controls/boolctrl.py' adding 'wxtbx/phil_controls/choice.py' adding 'wxtbx/phil_controls/choice_multi.py' adding 'wxtbx/phil_controls/floatctrl.py' adding 'wxtbx/phil_controls/floats.py' adding 'wxtbx/phil_controls/intctrl.py' adding 'wxtbx/phil_controls/ints.py' adding 'wxtbx/phil_controls/misc_ctrls.py' adding 'wxtbx/phil_controls/numbers.py' adding 'wxtbx/phil_controls/path.py' adding 'wxtbx/phil_controls/simple_dialogs.py' adding 'wxtbx/phil_controls/space_group.py' adding 'wxtbx/phil_controls/strctrl.py' adding 'wxtbx/phil_controls/strings.py' adding 'wxtbx/phil_controls/symop.py' adding 'wxtbx/phil_controls/text_base.py' adding 'wxtbx/phil_controls/tree.py' adding 'wxtbx/phil_controls/tribool.py' adding 'wxtbx/phil_controls/unit_cell.py' adding 'wxtbx/plots/__init__.py' adding 'wxtbx/plots/emringer.py' adding 'wxtbx/plots/molprobity.py' adding 'wxtbx/reports/__init__.py' adding 'wxtbx/reports/blast.py' adding 'wxtbx/reports/pdb_symmetry.py' adding 'xcif/__init__.py' adding 'xcif/run_tests.py' adding 'xcif/benchmarks/__init__.py' adding 'xcif/benchmarks/run_benchmarks.py' adding 'xcif/regression/__init__.py' adding 'xcif/regression/tst_api_compat.py' adding 'xcif/regression/tst_bindings.py' adding 'xcif/regression/tst_example_parse.py' adding 'xcif/regression/tst_example_tokenize.py' adding 'xcif/regression/tst_gil_release.py' adding 'xcif/regression/tst_iotbx_cif_reader_engine.py' adding 'xcif/regression/tst_iotbx_cif_reader_parity.py' adding 'xcif/regression/tst_memory.py' adding 'xcif/regression/tst_non_strict_mode.py' adding 'xcif/regression/tst_parse_verify.py' adding 'xcif/regression/tst_pdb_coordinates.py' adding 'xcif/regression/tst_pdb_sf.py' adding 'xcif/regression/tst_quoted_string_delimiter.py' adding 'xcif/regression/tst_roundtrip.py' adding 'xcif/regression/tst_semicolon_field_strict.py' adding 'xcif/regression/tst_string_interning.py' adding 'xcif/regression/tst_utf8.py' adding 'cctbx-2023.12.dist-info/METADATA' adding 'cctbx-2023.12.dist-info/WHEEL' adding 'cctbx-2023.12.dist-info/top_level.txt' adding 'cctbx-2023.12.dist-info/RECORD' removing build/bdist.linux-x86_64/wheel Successfully built cctbx-2023.12-py3-none-any.whl I: pybuild plugin_pyproject:168: Unpacking wheel built for python3.14 with "installer" module I: pybuild plugin_pyproject:142: Building wheel for python3.13 with "build" module I: pybuild base:385: python3.13 -m build --skip-dependency-check --no-isolation --wheel --outdir /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx * Building wheel... running bdist_wheel running build running build_py copying annlib_adaptbx/__init__.py -> build/lib/annlib_adaptbx copying annlib_adaptbx/run_tests.py -> build/lib/annlib_adaptbx copying ccp4io_adaptbx/copy_files.py -> build/lib/ccp4io_adaptbx copying ccp4io_adaptbx/__init__.py -> build/lib/ccp4io_adaptbx copying ccp4io_adaptbx/tst.py -> build/lib/ccp4io_adaptbx copying annlib_adaptbx/annlib_adaptbx/self_match.py -> build/lib/annlib_adaptbx/annlib_adaptbx copying annlib_adaptbx/annlib_adaptbx/sample.py -> build/lib/annlib_adaptbx/annlib_adaptbx copying annlib_adaptbx/annlib_adaptbx/__init__.py -> build/lib/annlib_adaptbx/annlib_adaptbx copying annlib_adaptbx/source_generators/__init__.py -> build/lib/annlib_adaptbx/source_generators copying annlib_adaptbx/source_generators/generate_all.py -> build/lib/annlib_adaptbx/source_generators running egg_info writing cctbx.egg-info/PKG-INFO writing dependency_links to cctbx.egg-info/dependency_links.txt writing requirements to cctbx.egg-info/requires.txt writing top-level names to cctbx.egg-info/top_level.txt reading manifest file 'cctbx.egg-info/SOURCES.txt' adding license file 'LICENSE.txt' writing manifest file 'cctbx.egg-info/SOURCES.txt' installing to build/bdist.linux-x86_64/wheel running install running install_lib creating build/bdist.linux-x86_64/wheel creating build/bdist.linux-x86_64/wheel/annlib_adaptbx creating build/bdist.linux-x86_64/wheel/annlib_adaptbx/annlib_adaptbx copying build/lib/annlib_adaptbx/annlib_adaptbx/self_match.py -> build/bdist.linux-x86_64/wheel/./annlib_adaptbx/annlib_adaptbx copying build/lib/annlib_adaptbx/annlib_adaptbx/sample.py -> build/bdist.linux-x86_64/wheel/./annlib_adaptbx/annlib_adaptbx copying build/lib/annlib_adaptbx/annlib_adaptbx/__init__.py -> build/bdist.linux-x86_64/wheel/./annlib_adaptbx/annlib_adaptbx creating build/bdist.linux-x86_64/wheel/annlib_adaptbx/source_generators copying build/lib/annlib_adaptbx/source_generators/__init__.py -> build/bdist.linux-x86_64/wheel/./annlib_adaptbx/source_generators copying build/lib/annlib_adaptbx/source_generators/generate_all.py -> build/bdist.linux-x86_64/wheel/./annlib_adaptbx/source_generators copying build/lib/annlib_adaptbx/__init__.py -> build/bdist.linux-x86_64/wheel/./annlib_adaptbx copying build/lib/annlib_adaptbx/run_tests.py -> build/bdist.linux-x86_64/wheel/./annlib_adaptbx creating build/bdist.linux-x86_64/wheel/fftw3tbx copying build/lib/fftw3tbx/__init__.py -> build/bdist.linux-x86_64/wheel/./fftw3tbx copying build/lib/fftw3tbx/libtbx_refresh.py -> build/bdist.linux-x86_64/wheel/./fftw3tbx copying build/lib/fftw3tbx/tst_ext.py -> build/bdist.linux-x86_64/wheel/./fftw3tbx creating build/bdist.linux-x86_64/wheel/smtbx creating build/bdist.linux-x86_64/wheel/smtbx/command_line copying build/lib/smtbx/command_line/absolute_structure.py -> build/bdist.linux-x86_64/wheel/./smtbx/command_line copying build/lib/smtbx/command_line/refine.py -> build/bdist.linux-x86_64/wheel/./smtbx/command_line copying build/lib/smtbx/command_line/anom_refine.py -> build/bdist.linux-x86_64/wheel/./smtbx/command_line copying build/lib/smtbx/command_line/__init__.py -> build/bdist.linux-x86_64/wheel/./smtbx/command_line copying build/lib/smtbx/command_line/masks.py -> build/bdist.linux-x86_64/wheel/./smtbx/command_line copying build/lib/smtbx/command_line/benchmark_refinement.py -> build/bdist.linux-x86_64/wheel/./smtbx/command_line creating build/bdist.linux-x86_64/wheel/smtbx/stl copying build/lib/smtbx/stl/map.py -> build/bdist.linux-x86_64/wheel/./smtbx/stl copying build/lib/smtbx/stl/__init__.py -> build/bdist.linux-x86_64/wheel/./smtbx/stl creating build/bdist.linux-x86_64/wheel/smtbx/masks copying build/lib/smtbx/masks/__init__.py -> build/bdist.linux-x86_64/wheel/./smtbx/masks copying build/lib/smtbx/development.py -> build/bdist.linux-x86_64/wheel/./smtbx creating build/bdist.linux-x86_64/wheel/smtbx/array_family copying build/lib/smtbx/array_family/__init__.py -> build/bdist.linux-x86_64/wheel/./smtbx/array_family creating build/bdist.linux-x86_64/wheel/smtbx/source_generators copying build/lib/smtbx/source_generators/flex_fwd_h.py -> build/bdist.linux-x86_64/wheel/./smtbx/source_generators copying build/lib/smtbx/source_generators/__init__.py -> build/bdist.linux-x86_64/wheel/./smtbx/source_generators creating build/bdist.linux-x86_64/wheel/smtbx/regression creating build/bdist.linux-x86_64/wheel/smtbx/regression/test_data copying build/lib/smtbx/regression/test_data/__init__.py -> build/bdist.linux-x86_64/wheel/./smtbx/regression/test_data copying build/lib/smtbx/regression/__init__.py -> build/bdist.linux-x86_64/wheel/./smtbx/regression copying build/lib/smtbx/regression/tst_commandline_refine.py -> build/bdist.linux-x86_64/wheel/./smtbx/regression copying build/lib/smtbx/regression/tst_commandline_anomrefine.py -> build/bdist.linux-x86_64/wheel/./smtbx/regression creating build/bdist.linux-x86_64/wheel/smtbx/ab_initio creating build/bdist.linux-x86_64/wheel/smtbx/ab_initio/tests copying build/lib/smtbx/ab_initio/tests/__init__.py -> build/bdist.linux-x86_64/wheel/./smtbx/ab_initio/tests copying build/lib/smtbx/ab_initio/tests/tst_charge_flipping.py -> build/bdist.linux-x86_64/wheel/./smtbx/ab_initio/tests copying build/lib/smtbx/ab_initio/tests/tst_ab_initio_ext.py -> build/bdist.linux-x86_64/wheel/./smtbx/ab_initio/tests copying build/lib/smtbx/ab_initio/charge_flipping.py -> build/bdist.linux-x86_64/wheel/./smtbx/ab_initio copying build/lib/smtbx/ab_initio/__init__.py -> build/bdist.linux-x86_64/wheel/./smtbx/ab_initio creating build/bdist.linux-x86_64/wheel/smtbx/refinement copying build/lib/smtbx/refinement/weighting_schemes.py -> build/bdist.linux-x86_64/wheel/./smtbx/refinement copying build/lib/smtbx/refinement/least_squares.py -> build/bdist.linux-x86_64/wheel/./smtbx/refinement copying build/lib/smtbx/refinement/__init__.py -> build/bdist.linux-x86_64/wheel/./smtbx/refinement creating build/bdist.linux-x86_64/wheel/smtbx/refinement/restraints copying build/lib/smtbx/refinement/restraints/origin_fixing_restraints.py -> build/bdist.linux-x86_64/wheel/./smtbx/refinement/restraints copying build/lib/smtbx/refinement/restraints/adp_restraints.py -> build/bdist.linux-x86_64/wheel/./smtbx/refinement/restraints copying build/lib/smtbx/refinement/restraints/__init__.py -> build/bdist.linux-x86_64/wheel/./smtbx/refinement/restraints creating build/bdist.linux-x86_64/wheel/smtbx/refinement/constraints copying build/lib/smtbx/refinement/constraints/rigid.py -> build/bdist.linux-x86_64/wheel/./smtbx/refinement/constraints copying build/lib/smtbx/refinement/constraints/occupancy.py -> build/bdist.linux-x86_64/wheel/./smtbx/refinement/constraints creating build/bdist.linux-x86_64/wheel/smtbx/refinement/constraints/geometrical copying build/lib/smtbx/refinement/constraints/geometrical/hydrogens.py -> build/bdist.linux-x86_64/wheel/./smtbx/refinement/constraints/geometrical copying build/lib/smtbx/refinement/constraints/geometrical/all.py -> build/bdist.linux-x86_64/wheel/./smtbx/refinement/constraints/geometrical copying build/lib/smtbx/refinement/constraints/geometrical/__init__.py -> build/bdist.linux-x86_64/wheel/./smtbx/refinement/constraints/geometrical creating build/bdist.linux-x86_64/wheel/smtbx/refinement/constraints/tests copying build/lib/smtbx/refinement/constraints/tests/tst_occupancies.py -> build/bdist.linux-x86_64/wheel/./smtbx/refinement/constraints/tests copying build/lib/smtbx/refinement/constraints/tests/tst_direction.py -> build/bdist.linux-x86_64/wheel/./smtbx/refinement/constraints/tests copying build/lib/smtbx/refinement/constraints/tests/tst_lbfgs.py -> build/bdist.linux-x86_64/wheel/./smtbx/refinement/constraints/tests copying build/lib/smtbx/refinement/constraints/tests/tst_same_group.py -> build/bdist.linux-x86_64/wheel/./smtbx/refinement/constraints/tests copying build/lib/smtbx/refinement/constraints/tests/tst_constrained_structure.py -> build/bdist.linux-x86_64/wheel/./smtbx/refinement/constraints/tests copying build/lib/smtbx/refinement/constraints/tests/tst_reparametrisation.py -> build/bdist.linux-x86_64/wheel/./smtbx/refinement/constraints/tests copying build/lib/smtbx/refinement/constraints/tests/__init__.py -> build/bdist.linux-x86_64/wheel/./smtbx/refinement/constraints/tests copying build/lib/smtbx/refinement/constraints/tests/tst_rigid.py -> build/bdist.linux-x86_64/wheel/./smtbx/refinement/constraints/tests copying build/lib/smtbx/refinement/constraints/tests/tst_disorder.py -> build/bdist.linux-x86_64/wheel/./smtbx/refinement/constraints/tests copying build/lib/smtbx/refinement/constraints/fpfdp.py -> build/bdist.linux-x86_64/wheel/./smtbx/refinement/constraints copying build/lib/smtbx/refinement/constraints/adp.py -> build/bdist.linux-x86_64/wheel/./smtbx/refinement/constraints copying build/lib/smtbx/refinement/constraints/site.py -> build/bdist.linux-x86_64/wheel/./smtbx/refinement/constraints copying build/lib/smtbx/refinement/constraints/all.py -> build/bdist.linux-x86_64/wheel/./smtbx/refinement/constraints copying build/lib/smtbx/refinement/constraints/__init__.py -> build/bdist.linux-x86_64/wheel/./smtbx/refinement/constraints copying build/lib/smtbx/__init__.py -> build/bdist.linux-x86_64/wheel/./smtbx copying build/lib/smtbx/run_tests.py -> build/bdist.linux-x86_64/wheel/./smtbx creating build/bdist.linux-x86_64/wheel/smtbx/absolute_structure copying build/lib/smtbx/absolute_structure/__init__.py -> build/bdist.linux-x86_64/wheel/./smtbx/absolute_structure copying build/lib/smtbx/libtbx_refresh.py -> build/bdist.linux-x86_64/wheel/./smtbx creating build/bdist.linux-x86_64/wheel/smtbx/structure_factors copying build/lib/smtbx/structure_factors/__init__.py -> build/bdist.linux-x86_64/wheel/./smtbx/structure_factors creating build/bdist.linux-x86_64/wheel/smtbx/structure_factors/direct copying build/lib/smtbx/structure_factors/direct/__init__.py -> build/bdist.linux-x86_64/wheel/./smtbx/structure_factors/direct copying build/lib/smtbx/utils.py -> build/bdist.linux-x86_64/wheel/./smtbx creating build/bdist.linux-x86_64/wheel/wxtbx copying build/lib/wxtbx/checklistctrl.py -> build/bdist.linux-x86_64/wheel/./wxtbx creating build/bdist.linux-x86_64/wheel/wxtbx/phil_controls copying build/lib/wxtbx/phil_controls/choice_multi.py -> build/bdist.linux-x86_64/wheel/./wxtbx/phil_controls copying build/lib/wxtbx/phil_controls/path.py -> build/bdist.linux-x86_64/wheel/./wxtbx/phil_controls copying build/lib/wxtbx/phil_controls/tribool.py -> build/bdist.linux-x86_64/wheel/./wxtbx/phil_controls copying build/lib/wxtbx/phil_controls/floats.py -> build/bdist.linux-x86_64/wheel/./wxtbx/phil_controls copying build/lib/wxtbx/phil_controls/tree.py -> build/bdist.linux-x86_64/wheel/./wxtbx/phil_controls copying build/lib/wxtbx/phil_controls/unit_cell.py -> build/bdist.linux-x86_64/wheel/./wxtbx/phil_controls copying build/lib/wxtbx/phil_controls/space_group.py -> build/bdist.linux-x86_64/wheel/./wxtbx/phil_controls copying build/lib/wxtbx/phil_controls/array_label.py -> build/bdist.linux-x86_64/wheel/./wxtbx/phil_controls copying build/lib/wxtbx/phil_controls/numbers.py -> build/bdist.linux-x86_64/wheel/./wxtbx/phil_controls copying build/lib/wxtbx/phil_controls/text_base.py -> build/bdist.linux-x86_64/wheel/./wxtbx/phil_controls copying build/lib/wxtbx/phil_controls/strings.py -> build/bdist.linux-x86_64/wheel/./wxtbx/phil_controls copying build/lib/wxtbx/phil_controls/misc_ctrls.py -> build/bdist.linux-x86_64/wheel/./wxtbx/phil_controls copying build/lib/wxtbx/phil_controls/strctrl.py -> build/bdist.linux-x86_64/wheel/./wxtbx/phil_controls copying build/lib/wxtbx/phil_controls/choice.py -> build/bdist.linux-x86_64/wheel/./wxtbx/phil_controls copying build/lib/wxtbx/phil_controls/simple_dialogs.py -> build/bdist.linux-x86_64/wheel/./wxtbx/phil_controls copying build/lib/wxtbx/phil_controls/__init__.py -> build/bdist.linux-x86_64/wheel/./wxtbx/phil_controls copying build/lib/wxtbx/phil_controls/symop.py -> build/bdist.linux-x86_64/wheel/./wxtbx/phil_controls copying build/lib/wxtbx/phil_controls/ints.py -> build/bdist.linux-x86_64/wheel/./wxtbx/phil_controls copying build/lib/wxtbx/phil_controls/boolctrl.py -> build/bdist.linux-x86_64/wheel/./wxtbx/phil_controls copying build/lib/wxtbx/phil_controls/intctrl.py -> build/bdist.linux-x86_64/wheel/./wxtbx/phil_controls copying build/lib/wxtbx/phil_controls/floatctrl.py -> build/bdist.linux-x86_64/wheel/./wxtbx/phil_controls creating build/bdist.linux-x86_64/wheel/wxtbx/command_line copying build/lib/wxtbx/command_line/plan_sad_experiment.py -> build/bdist.linux-x86_64/wheel/./wxtbx/command_line copying build/lib/wxtbx/command_line/xtriage.py -> build/bdist.linux-x86_64/wheel/./wxtbx/command_line copying build/lib/wxtbx/command_line/plot_anomalous_scattering.py -> build/bdist.linux-x86_64/wheel/./wxtbx/command_line copying build/lib/wxtbx/command_line/anomalous_differences_histogram.py -> build/bdist.linux-x86_64/wheel/./wxtbx/command_line copying build/lib/wxtbx/command_line/show_file_info.py -> build/bdist.linux-x86_64/wheel/./wxtbx/command_line copying build/lib/wxtbx/command_line/pdb_statistics.py -> build/bdist.linux-x86_64/wheel/./wxtbx/command_line copying build/lib/wxtbx/command_line/loggraph.py -> build/bdist.linux-x86_64/wheel/./wxtbx/command_line copying build/lib/wxtbx/command_line/b_plot.py -> build/bdist.linux-x86_64/wheel/./wxtbx/command_line copying build/lib/wxtbx/command_line/__init__.py -> build/bdist.linux-x86_64/wheel/./wxtbx/command_line copying build/lib/wxtbx/command_line/pdb_editor.py -> build/bdist.linux-x86_64/wheel/./wxtbx/command_line copying build/lib/wxtbx/command_line/wxpython.py -> build/bdist.linux-x86_64/wheel/./wxtbx/command_line copying build/lib/wxtbx/command_line/inspect_r_free_flags.py -> build/bdist.linux-x86_64/wheel/./wxtbx/command_line copying build/lib/wxtbx/anomalous_scattering.py -> build/bdist.linux-x86_64/wheel/./wxtbx copying build/lib/wxtbx/bitmaps.py -> build/bdist.linux-x86_64/wheel/./wxtbx copying build/lib/wxtbx/metallicbutton.py -> build/bdist.linux-x86_64/wheel/./wxtbx copying build/lib/wxtbx/layout.py -> build/bdist.linux-x86_64/wheel/./wxtbx creating build/bdist.linux-x86_64/wheel/wxtbx/plots copying build/lib/wxtbx/plots/__init__.py -> build/bdist.linux-x86_64/wheel/./wxtbx/plots copying build/lib/wxtbx/plots/molprobity.py -> build/bdist.linux-x86_64/wheel/./wxtbx/plots copying build/lib/wxtbx/plots/emringer.py -> build/bdist.linux-x86_64/wheel/./wxtbx/plots copying build/lib/wxtbx/tables.py -> build/bdist.linux-x86_64/wheel/./wxtbx copying build/lib/wxtbx/adp_statistics.py -> build/bdist.linux-x86_64/wheel/./wxtbx copying build/lib/wxtbx/xtriage.py -> build/bdist.linux-x86_64/wheel/./wxtbx copying build/lib/wxtbx/windows.py -> build/bdist.linux-x86_64/wheel/./wxtbx copying build/lib/wxtbx/browser.py -> build/bdist.linux-x86_64/wheel/./wxtbx creating build/bdist.linux-x86_64/wheel/wxtbx/reports copying build/lib/wxtbx/reports/blast.py -> build/bdist.linux-x86_64/wheel/./wxtbx/reports copying build/lib/wxtbx/reports/pdb_symmetry.py -> build/bdist.linux-x86_64/wheel/./wxtbx/reports copying build/lib/wxtbx/reports/__init__.py -> build/bdist.linux-x86_64/wheel/./wxtbx/reports copying build/lib/wxtbx/monitor.py -> build/bdist.linux-x86_64/wheel/./wxtbx copying build/lib/wxtbx/custom_restraints.py -> build/bdist.linux-x86_64/wheel/./wxtbx copying build/lib/wxtbx/sequence_view.py -> build/bdist.linux-x86_64/wheel/./wxtbx copying build/lib/wxtbx/listeditor.py -> build/bdist.linux-x86_64/wheel/./wxtbx copying build/lib/wxtbx/ensemble_validation.py -> build/bdist.linux-x86_64/wheel/./wxtbx copying build/lib/wxtbx/segmentedctrl.py -> build/bdist.linux-x86_64/wheel/./wxtbx copying build/lib/wxtbx/process_control.py -> build/bdist.linux-x86_64/wheel/./wxtbx copying build/lib/wxtbx/wx4_compatibility.py -> build/bdist.linux-x86_64/wheel/./wxtbx copying build/lib/wxtbx/path_dialogs.py -> build/bdist.linux-x86_64/wheel/./wxtbx copying build/lib/wxtbx/symmetry_dialog.py -> build/bdist.linux-x86_64/wheel/./wxtbx copying build/lib/wxtbx/b_plot.py -> build/bdist.linux-x86_64/wheel/./wxtbx copying build/lib/wxtbx/qstat_view.py -> build/bdist.linux-x86_64/wheel/./wxtbx copying build/lib/wxtbx/heavy_atoms.py -> build/bdist.linux-x86_64/wheel/./wxtbx copying build/lib/wxtbx/__init__.py -> build/bdist.linux-x86_64/wheel/./wxtbx copying build/lib/wxtbx/mtz_dump.py -> build/bdist.linux-x86_64/wheel/./wxtbx copying build/lib/wxtbx/errors.py -> build/bdist.linux-x86_64/wheel/./wxtbx copying build/lib/wxtbx/pdb_editor.py -> build/bdist.linux-x86_64/wheel/./wxtbx copying build/lib/wxtbx/misc_dialogs.py -> build/bdist.linux-x86_64/wheel/./wxtbx copying build/lib/wxtbx/polygon.py -> build/bdist.linux-x86_64/wheel/./wxtbx copying build/lib/wxtbx/app.py -> build/bdist.linux-x86_64/wheel/./wxtbx copying build/lib/wxtbx/polygon_db_viewer.py -> build/bdist.linux-x86_64/wheel/./wxtbx copying build/lib/wxtbx/icons.py -> build/bdist.linux-x86_64/wheel/./wxtbx copying build/lib/wxtbx/info_panels.py -> build/bdist.linux-x86_64/wheel/./wxtbx copying build/lib/wxtbx/utils.py -> build/bdist.linux-x86_64/wheel/./wxtbx creating build/bdist.linux-x86_64/wheel/cma_es copying build/lib/cma_es/cma_es_interface.py -> build/bdist.linux-x86_64/wheel/./cma_es copying build/lib/cma_es/__init__.py -> build/bdist.linux-x86_64/wheel/./cma_es copying build/lib/cma_es/run_tests.py -> build/bdist.linux-x86_64/wheel/./cma_es copying build/lib/cma_es/tst_cma_es.py -> build/bdist.linux-x86_64/wheel/./cma_es creating build/bdist.linux-x86_64/wheel/boost_adaptbx creating build/bdist.linux-x86_64/wheel/boost_adaptbx/command_line copying build/lib/boost_adaptbx/command_line/show_platform_info.py -> build/bdist.linux-x86_64/wheel/./boost_adaptbx/command_line copying build/lib/boost_adaptbx/command_line/double_overflow.py -> build/bdist.linux-x86_64/wheel/./boost_adaptbx/command_line copying build/lib/boost_adaptbx/command_line/gcd.py -> build/bdist.linux-x86_64/wheel/./boost_adaptbx/command_line copying build/lib/boost_adaptbx/command_line/lcm.py -> build/bdist.linux-x86_64/wheel/./boost_adaptbx/command_line copying build/lib/boost_adaptbx/command_line/nested_cpp_loops_with_check_signals.py -> build/bdist.linux-x86_64/wheel/./boost_adaptbx/command_line copying build/lib/boost_adaptbx/command_line/divide_by_zero.py -> build/bdist.linux-x86_64/wheel/./boost_adaptbx/command_line copying build/lib/boost_adaptbx/command_line/int_overflow.py -> build/bdist.linux-x86_64/wheel/./boost_adaptbx/command_line copying build/lib/boost_adaptbx/command_line/inexact.py -> build/bdist.linux-x86_64/wheel/./boost_adaptbx/command_line copying build/lib/boost_adaptbx/command_line/segmentation_fault.py -> build/bdist.linux-x86_64/wheel/./boost_adaptbx/command_line copying build/lib/boost_adaptbx/command_line/__init__.py -> build/bdist.linux-x86_64/wheel/./boost_adaptbx/command_line copying build/lib/boost_adaptbx/command_line/show_environ_usage.py -> build/bdist.linux-x86_64/wheel/./boost_adaptbx/command_line creating build/bdist.linux-x86_64/wheel/boost_adaptbx/graph copying build/lib/boost_adaptbx/graph/min_cut_max_flow.py -> build/bdist.linux-x86_64/wheel/./boost_adaptbx/graph copying build/lib/boost_adaptbx/graph/graph_structure_comparison.py -> build/bdist.linux-x86_64/wheel/./boost_adaptbx/graph copying build/lib/boost_adaptbx/graph/connected_component_algorithm.py -> build/bdist.linux-x86_64/wheel/./boost_adaptbx/graph copying build/lib/boost_adaptbx/graph/metric.py -> build/bdist.linux-x86_64/wheel/./boost_adaptbx/graph copying build/lib/boost_adaptbx/graph/utility.py -> build/bdist.linux-x86_64/wheel/./boost_adaptbx/graph copying build/lib/boost_adaptbx/graph/breadth_first_search.py -> build/bdist.linux-x86_64/wheel/./boost_adaptbx/graph copying build/lib/boost_adaptbx/graph/maximum_clique.py -> build/bdist.linux-x86_64/wheel/./boost_adaptbx/graph copying build/lib/boost_adaptbx/graph/__init__.py -> build/bdist.linux-x86_64/wheel/./boost_adaptbx/graph copying build/lib/boost_adaptbx/graph/clustering_algorithm.py -> build/bdist.linux-x86_64/wheel/./boost_adaptbx/graph copying build/lib/boost_adaptbx/graph/minimum_cut_enumerate.py -> build/bdist.linux-x86_64/wheel/./boost_adaptbx/graph copying build/lib/boost_adaptbx/hybrid_times.py -> build/bdist.linux-x86_64/wheel/./boost_adaptbx creating build/bdist.linux-x86_64/wheel/boost_adaptbx/boost copying build/lib/boost_adaptbx/boost/tuple.py -> build/bdist.linux-x86_64/wheel/./boost_adaptbx/boost copying build/lib/boost_adaptbx/boost/optional.py -> build/bdist.linux-x86_64/wheel/./boost_adaptbx/boost copying build/lib/boost_adaptbx/boost/std_pair.py -> build/bdist.linux-x86_64/wheel/./boost_adaptbx/boost copying build/lib/boost_adaptbx/boost/python.py -> build/bdist.linux-x86_64/wheel/./boost_adaptbx/boost copying build/lib/boost_adaptbx/boost/__init__.py -> build/bdist.linux-x86_64/wheel/./boost_adaptbx/boost copying build/lib/boost_adaptbx/boost/rational.py -> build/bdist.linux-x86_64/wheel/./boost_adaptbx/boost copying build/lib/boost_adaptbx/__init__.py -> build/bdist.linux-x86_64/wheel/./boost_adaptbx copying build/lib/boost_adaptbx/run_tests.py -> build/bdist.linux-x86_64/wheel/./boost_adaptbx copying build/lib/boost_adaptbx/libtbx_refresh.py -> build/bdist.linux-x86_64/wheel/./boost_adaptbx creating build/bdist.linux-x86_64/wheel/gltbx creating build/bdist.linux-x86_64/wheel/gltbx/command_line copying build/lib/gltbx/command_line/try_imports.py -> build/bdist.linux-x86_64/wheel/./gltbx/command_line copying build/lib/gltbx/command_line/__init__.py -> build/bdist.linux-x86_64/wheel/./gltbx/command_line copying build/lib/gltbx/wx_scene.py -> build/bdist.linux-x86_64/wheel/./gltbx copying build/lib/gltbx/viewer_utils.py -> build/bdist.linux-x86_64/wheel/./gltbx copying build/lib/gltbx/wx_motion_on_tab.py -> build/bdist.linux-x86_64/wheel/./gltbx copying build/lib/gltbx/gl.py -> build/bdist.linux-x86_64/wheel/./gltbx copying build/lib/gltbx/images.py -> build/bdist.linux-x86_64/wheel/./gltbx copying build/lib/gltbx/generate_functions_bpl.py -> build/bdist.linux-x86_64/wheel/./gltbx copying build/lib/gltbx/wx_viewers_images.py -> build/bdist.linux-x86_64/wheel/./gltbx copying build/lib/gltbx/wx_viewer_example.py -> build/bdist.linux-x86_64/wheel/./gltbx copying build/lib/gltbx/generate_defines_bpl.py -> build/bdist.linux-x86_64/wheel/./gltbx copying build/lib/gltbx/glu.py -> build/bdist.linux-x86_64/wheel/./gltbx copying build/lib/gltbx/wx_cube.py -> build/bdist.linux-x86_64/wheel/./gltbx copying build/lib/gltbx/fonts.py -> build/bdist.linux-x86_64/wheel/./gltbx copying build/lib/gltbx/util.py -> build/bdist.linux-x86_64/wheel/./gltbx copying build/lib/gltbx/extract_opengl_specs.py -> build/bdist.linux-x86_64/wheel/./gltbx copying build/lib/gltbx/tst_fonts.py -> build/bdist.linux-x86_64/wheel/./gltbx copying build/lib/gltbx/wx_viewer.py -> build/bdist.linux-x86_64/wheel/./gltbx copying build/lib/gltbx/__init__.py -> build/bdist.linux-x86_64/wheel/./gltbx copying build/lib/gltbx/generate_fonts_ucs_cpp.py -> build/bdist.linux-x86_64/wheel/./gltbx copying build/lib/gltbx/quadrics.py -> build/bdist.linux-x86_64/wheel/./gltbx copying build/lib/gltbx/run_tests.py -> build/bdist.linux-x86_64/wheel/./gltbx copying build/lib/gltbx/gl_managed.py -> build/bdist.linux-x86_64/wheel/./gltbx copying build/lib/gltbx/wx_viewer_leapmotion.py -> build/bdist.linux-x86_64/wheel/./gltbx copying build/lib/gltbx/tst.py -> build/bdist.linux-x86_64/wheel/./gltbx copying build/lib/gltbx/tst_ellipsoids.py -> build/bdist.linux-x86_64/wheel/./gltbx copying build/lib/gltbx/tst_viewer_utils.py -> build/bdist.linux-x86_64/wheel/./gltbx copying build/lib/gltbx/libtbx_refresh.py -> build/bdist.linux-x86_64/wheel/./gltbx copying build/lib/gltbx/wx_ellipsoids_test.py -> build/bdist.linux-x86_64/wheel/./gltbx creating build/bdist.linux-x86_64/wheel/mmtbx creating build/bdist.linux-x86_64/wheel/mmtbx/command_line copying build/lib/mmtbx/command_line/rna_validate_bonds.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/model_vs_map.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/fmodel.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/remove_outliers.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/rotalyze.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/model_model_distances.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/pdbtools.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/distance_difference.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/density_modification.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/models_as_chains.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/super.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/barbed_wire_analysis.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/arginine_geometry.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/rama_z.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/suitename.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/polder.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/model_vs_sequence.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/reciprocal_space_arrays.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/cif_as_mtz.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/reduce_cryoem_resolution.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/plan_sad_experiment.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/rebuild_rotarama_cache.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/comparama.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/ringer.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/mask.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/hbond.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/xmanip.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/sisa.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/fetch_pdb.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/chiral_validation.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/verify_mon_lib_data.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/mon_lib_cif_triage.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/cbetadev.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/map_to_model_histogram.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/xtrapol8.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/search_pdb_symmetry.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/taam_minus_iam.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/cablam.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/xtriage.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/model_idealization.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/mtz2map.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/undowser2.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/prune_model.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/model_vs_data.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/mp_validate_bonds.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/table_one.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/select_best_starting_model.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/tls_analysis.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/atom_valence_simple.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/dynamics.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/maximum_entropy_map.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/validate_H_cl_app.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/helix_sheet_recs_as_pdb_files.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/ligand_restraints_validation.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/clashscore.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/suitename_old.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/fobs_minus_fobs_map.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/find_peaks_holes.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/secondary_structure_restraints.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/ramalyze.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/cc_star.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/sort_hetatms.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/geometry_minimization.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/water_b_factors.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/emringer_score.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/debug_riding.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/holton_geometry_validation.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/apply_ncs_to_ligand.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/rebuild_cablam_cache.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/next_gen_atom_typing.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/maps.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/ss_idealization.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/where_is_that_cif_file.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/process_predicted_model.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/angle.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/probe2.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/ribbons.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/perigee.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/altloc_remediate.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/f000.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/electrons.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/reduce2.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/development_aev.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/rigid_bond_test.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/massage_data.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/fab_elbow_angle.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/undowser.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/rna_validate_suites.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/grow_density.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/hydrogenate.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/probescore_ligand.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/real_space_diff_map.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/quantum_interface.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/map_comparison.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/find_tls_groups.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/matthews.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/pdb_interpretation.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/fake_f_obs.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/rank_scale_map.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/estimate_bijvoet_ratio.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/tls_as_xyz.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/real_space_correlation.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/superpose.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/cablam_idealization.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/refine_anomalous_substructure.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/show_r_factors_by_shell.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/rna_validate_puckers.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/molprobity.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/clashscore2.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/pdb_atom_selection.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/mp_geo.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/kinemage.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/development_fem.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/map_box.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/validate_ligands.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/r_factor_statistics.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/secondary_structure_validation.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/find_residue_in_pdb.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/rna_validate.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/validation_summary.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/model_map.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/prepare_pdb_deposition.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/tls.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/nonbonded_overlaps.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/map_to_structure_factors.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/emringer.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line copying build/lib/mmtbx/command_line/omegalyze.py -> build/bdist.linux-x86_64/wheel/./mmtbx/command_line creating build/bdist.linux-x86_64/wheel/mmtbx/rotamer copying build/lib/mmtbx/rotamer/n_dim_table.py -> build/bdist.linux-x86_64/wheel/./mmtbx/rotamer copying build/lib/mmtbx/rotamer/nqh.py -> build/bdist.linux-x86_64/wheel/./mmtbx/rotamer copying build/lib/mmtbx/rotamer/ramachandran_eval.py -> build/bdist.linux-x86_64/wheel/./mmtbx/rotamer copying build/lib/mmtbx/rotamer/ramachandran_eval_deprecated.py -> build/bdist.linux-x86_64/wheel/./mmtbx/rotamer copying build/lib/mmtbx/rotamer/tst_geostd_vs_sidechain_angles_props.py -> build/bdist.linux-x86_64/wheel/./mmtbx/rotamer copying build/lib/mmtbx/rotamer/rotamer_eval.py -> build/bdist.linux-x86_64/wheel/./mmtbx/rotamer copying build/lib/mmtbx/rotamer/tst_rotamer_eval.py -> build/bdist.linux-x86_64/wheel/./mmtbx/rotamer copying build/lib/mmtbx/rotamer/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/rotamer copying build/lib/mmtbx/rotamer/graphics.py -> build/bdist.linux-x86_64/wheel/./mmtbx/rotamer copying build/lib/mmtbx/rotamer/sidechain_angles.py -> build/bdist.linux-x86_64/wheel/./mmtbx/rotamer copying build/lib/mmtbx/map_tools.py -> build/bdist.linux-x86_64/wheel/./mmtbx copying build/lib/mmtbx/pdbtools.py -> build/bdist.linux-x86_64/wheel/./mmtbx creating build/bdist.linux-x86_64/wheel/mmtbx/den copying build/lib/mmtbx/den/refinement.py -> build/bdist.linux-x86_64/wheel/./mmtbx/den copying build/lib/mmtbx/den/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/den copying build/lib/mmtbx/den/plot_weights.py -> build/bdist.linux-x86_64/wheel/./mmtbx/den creating build/bdist.linux-x86_64/wheel/mmtbx/twinning copying build/lib/mmtbx/twinning/probabalistic_detwinning.py -> build/bdist.linux-x86_64/wheel/./mmtbx/twinning copying build/lib/mmtbx/twinning/twin_f_model.py -> build/bdist.linux-x86_64/wheel/./mmtbx/twinning copying build/lib/mmtbx/twinning/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/twinning copying build/lib/mmtbx/resolve_resources.py -> build/bdist.linux-x86_64/wheel/./mmtbx creating build/bdist.linux-x86_64/wheel/mmtbx/masks copying build/lib/mmtbx/masks/tst_masks.py -> build/bdist.linux-x86_64/wheel/./mmtbx/masks copying build/lib/mmtbx/masks/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/masks copying build/lib/mmtbx/masks/tst_asu_mask.py -> build/bdist.linux-x86_64/wheel/./mmtbx/masks creating build/bdist.linux-x86_64/wheel/mmtbx/probe copying build/lib/mmtbx/probe/tst_mmtbx_probe_ext.py -> build/bdist.linux-x86_64/wheel/./mmtbx/probe copying build/lib/mmtbx/probe/CompareOriginalAndNewProbeAtomInfo.py -> build/bdist.linux-x86_64/wheel/./mmtbx/probe copying build/lib/mmtbx/probe/Helpers.py -> build/bdist.linux-x86_64/wheel/./mmtbx/probe copying build/lib/mmtbx/probe/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/probe copying build/lib/mmtbx/probe/AtomTypes.py -> build/bdist.linux-x86_64/wheel/./mmtbx/probe creating build/bdist.linux-x86_64/wheel/mmtbx/solvent copying build/lib/mmtbx/solvent/map_to_water.py -> build/bdist.linux-x86_64/wheel/./mmtbx/solvent copying build/lib/mmtbx/solvent/ordered_solvent.py -> build/bdist.linux-x86_64/wheel/./mmtbx/solvent copying build/lib/mmtbx/solvent/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/solvent copying build/lib/mmtbx/solvent/ensemble_ordered_solvent.py -> build/bdist.linux-x86_64/wheel/./mmtbx/solvent creating build/bdist.linux-x86_64/wheel/mmtbx/reduce copying build/lib/mmtbx/reduce/InteractionGraph.py -> build/bdist.linux-x86_64/wheel/./mmtbx/reduce copying build/lib/mmtbx/reduce/Movers.py -> build/bdist.linux-x86_64/wheel/./mmtbx/reduce copying build/lib/mmtbx/reduce/tst_mmtbx_reduce_ext.py -> build/bdist.linux-x86_64/wheel/./mmtbx/reduce copying build/lib/mmtbx/reduce/Optimizers.py -> build/bdist.linux-x86_64/wheel/./mmtbx/reduce copying build/lib/mmtbx/reduce/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/reduce copying build/lib/mmtbx/xmanip.py -> build/bdist.linux-x86_64/wheel/./mmtbx creating build/bdist.linux-x86_64/wheel/mmtbx/atomic_environment_vectors copying build/lib/mmtbx/atomic_environment_vectors/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/atomic_environment_vectors copying build/lib/mmtbx/atomic_environment_vectors/tst.py -> build/bdist.linux-x86_64/wheel/./mmtbx/atomic_environment_vectors copying build/lib/mmtbx/msa.py -> build/bdist.linux-x86_64/wheel/./mmtbx creating build/bdist.linux-x86_64/wheel/mmtbx/maps copying build/lib/mmtbx/maps/map_model_cc.py -> build/bdist.linux-x86_64/wheel/./mmtbx/maps copying build/lib/mmtbx/maps/polder.py -> build/bdist.linux-x86_64/wheel/./mmtbx/maps copying build/lib/mmtbx/maps/xtrapol8.py -> build/bdist.linux-x86_64/wheel/./mmtbx/maps copying build/lib/mmtbx/maps/fem.py -> build/bdist.linux-x86_64/wheel/./mmtbx/maps copying build/lib/mmtbx/maps/fobs_minus_fobs_map.py -> build/bdist.linux-x86_64/wheel/./mmtbx/maps copying build/lib/mmtbx/maps/tst_correlation.py -> build/bdist.linux-x86_64/wheel/./mmtbx/maps copying build/lib/mmtbx/maps/tst_composite_omit_map_3.py -> build/bdist.linux-x86_64/wheel/./mmtbx/maps copying build/lib/mmtbx/maps/tst_composite_omit_map.py -> build/bdist.linux-x86_64/wheel/./mmtbx/maps copying build/lib/mmtbx/maps/correlation.py -> build/bdist.linux-x86_64/wheel/./mmtbx/maps copying build/lib/mmtbx/maps/kick.py -> build/bdist.linux-x86_64/wheel/./mmtbx/maps copying build/lib/mmtbx/maps/composite_omit_map.py -> build/bdist.linux-x86_64/wheel/./mmtbx/maps copying build/lib/mmtbx/maps/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/maps copying build/lib/mmtbx/maps/superpose.py -> build/bdist.linux-x86_64/wheel/./mmtbx/maps copying build/lib/mmtbx/maps/tst_composite_omit_map_2.py -> build/bdist.linux-x86_64/wheel/./mmtbx/maps copying build/lib/mmtbx/maps/tst_map_model_cc_and_vals_per_atom_xtal.py -> build/bdist.linux-x86_64/wheel/./mmtbx/maps copying build/lib/mmtbx/maps/mtriage.py -> build/bdist.linux-x86_64/wheel/./mmtbx/maps copying build/lib/mmtbx/maps/utils.py -> build/bdist.linux-x86_64/wheel/./mmtbx/maps creating build/bdist.linux-x86_64/wheel/mmtbx/secondary_structure copying build/lib/mmtbx/secondary_structure/tst_segid.py -> build/bdist.linux-x86_64/wheel/./mmtbx/secondary_structure copying build/lib/mmtbx/secondary_structure/secondary_structure_params.py -> build/bdist.linux-x86_64/wheel/./mmtbx/secondary_structure copying build/lib/mmtbx/secondary_structure/ss_validation.py -> build/bdist.linux-x86_64/wheel/./mmtbx/secondary_structure copying build/lib/mmtbx/secondary_structure/regularize_from_pdb.py -> build/bdist.linux-x86_64/wheel/./mmtbx/secondary_structure copying build/lib/mmtbx/secondary_structure/tst_insertion_codes.py -> build/bdist.linux-x86_64/wheel/./mmtbx/secondary_structure copying build/lib/mmtbx/secondary_structure/nucleic_acids.py -> build/bdist.linux-x86_64/wheel/./mmtbx/secondary_structure copying build/lib/mmtbx/secondary_structure/find_ss_from_ca.py -> build/bdist.linux-x86_64/wheel/./mmtbx/secondary_structure copying build/lib/mmtbx/secondary_structure/proteins.py -> build/bdist.linux-x86_64/wheel/./mmtbx/secondary_structure copying build/lib/mmtbx/secondary_structure/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/secondary_structure copying build/lib/mmtbx/secondary_structure/tst.py -> build/bdist.linux-x86_64/wheel/./mmtbx/secondary_structure creating build/bdist.linux-x86_64/wheel/mmtbx/secondary_structure/build copying build/lib/mmtbx/secondary_structure/build/tst_1.py -> build/bdist.linux-x86_64/wheel/./mmtbx/secondary_structure/build copying build/lib/mmtbx/secondary_structure/build/tst_ss_id_ncs.py -> build/bdist.linux-x86_64/wheel/./mmtbx/secondary_structure/build copying build/lib/mmtbx/secondary_structure/build/tst_2.py -> build/bdist.linux-x86_64/wheel/./mmtbx/secondary_structure/build copying build/lib/mmtbx/secondary_structure/build/ss_idealization.py -> build/bdist.linux-x86_64/wheel/./mmtbx/secondary_structure/build copying build/lib/mmtbx/secondary_structure/build/tst_3.py -> build/bdist.linux-x86_64/wheel/./mmtbx/secondary_structure/build copying build/lib/mmtbx/secondary_structure/build/tst_io.py -> build/bdist.linux-x86_64/wheel/./mmtbx/secondary_structure/build copying build/lib/mmtbx/secondary_structure/build/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/secondary_structure/build copying build/lib/mmtbx/secondary_structure/utils.py -> build/bdist.linux-x86_64/wheel/./mmtbx/secondary_structure copying build/lib/mmtbx/pdb_symmetry.py -> build/bdist.linux-x86_64/wheel/./mmtbx copying build/lib/mmtbx/lattice.py -> build/bdist.linux-x86_64/wheel/./mmtbx creating build/bdist.linux-x86_64/wheel/mmtbx/chemical_components copying build/lib/mmtbx/chemical_components/cif_parser.py -> build/bdist.linux-x86_64/wheel/./mmtbx/chemical_components copying build/lib/mmtbx/chemical_components/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/chemical_components copying build/lib/mmtbx/chemical_components/tst.py -> build/bdist.linux-x86_64/wheel/./mmtbx/chemical_components copying build/lib/mmtbx/model_vs_data.py -> build/bdist.linux-x86_64/wheel/./mmtbx creating build/bdist.linux-x86_64/wheel/mmtbx/geometry copying build/lib/mmtbx/geometry/asa.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry copying build/lib/mmtbx/geometry/topology.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry copying build/lib/mmtbx/geometry/sphere_surface_sampling.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry copying build/lib/mmtbx/geometry/indexing.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry copying build/lib/mmtbx/geometry/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry copying build/lib/mmtbx/geometry/clash.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry copying build/lib/mmtbx/geometry/shared_types.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry copying build/lib/mmtbx/geometry/altloc.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry creating build/bdist.linux-x86_64/wheel/mmtbx/sisa creating build/bdist.linux-x86_64/wheel/mmtbx/sisa/optimize copying build/lib/mmtbx/sisa/optimize/mod_masks.py -> build/bdist.linux-x86_64/wheel/./mmtbx/sisa/optimize copying build/lib/mmtbx/sisa/optimize/mod_ga.py -> build/bdist.linux-x86_64/wheel/./mmtbx/sisa/optimize copying build/lib/mmtbx/sisa/optimize/mod_input.py -> build/bdist.linux-x86_64/wheel/./mmtbx/sisa/optimize copying build/lib/mmtbx/sisa/optimize/mod_util.py -> build/bdist.linux-x86_64/wheel/./mmtbx/sisa/optimize copying build/lib/mmtbx/sisa/optimize/mod_mtz.py -> build/bdist.linux-x86_64/wheel/./mmtbx/sisa/optimize copying build/lib/mmtbx/sisa/optimize/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/sisa/optimize copying build/lib/mmtbx/sisa/optimize/mod_optimize.py -> build/bdist.linux-x86_64/wheel/./mmtbx/sisa/optimize copying build/lib/mmtbx/sisa/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/sisa copying build/lib/mmtbx/proq2.py -> build/bdist.linux-x86_64/wheel/./mmtbx creating build/bdist.linux-x86_64/wheel/mmtbx/idealized_aa_residues copying build/lib/mmtbx/idealized_aa_residues/all_his.py -> build/bdist.linux-x86_64/wheel/./mmtbx/idealized_aa_residues copying build/lib/mmtbx/idealized_aa_residues/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/idealized_aa_residues copying build/lib/mmtbx/idealized_aa_residues/rotamer_manager.py -> build/bdist.linux-x86_64/wheel/./mmtbx/idealized_aa_residues copying build/lib/mmtbx/idealized_aa_residues/sample_rotamers.py -> build/bdist.linux-x86_64/wheel/./mmtbx/idealized_aa_residues copying build/lib/mmtbx/idealized_aa_residues/tst.py -> build/bdist.linux-x86_64/wheel/./mmtbx/idealized_aa_residues copying build/lib/mmtbx/pdb_distances.py -> build/bdist.linux-x86_64/wheel/./mmtbx creating build/bdist.linux-x86_64/wheel/mmtbx/tls copying build/lib/mmtbx/tls/perm14.py -> build/bdist.linux-x86_64/wheel/./mmtbx/tls copying build/lib/mmtbx/tls/perm12.py -> build/bdist.linux-x86_64/wheel/./mmtbx/tls copying build/lib/mmtbx/tls/decompose.py -> build/bdist.linux-x86_64/wheel/./mmtbx/tls copying build/lib/mmtbx/tls/perm10.py -> build/bdist.linux-x86_64/wheel/./mmtbx/tls copying build/lib/mmtbx/tls/perm13.py -> build/bdist.linux-x86_64/wheel/./mmtbx/tls copying build/lib/mmtbx/tls/perm11.py -> build/bdist.linux-x86_64/wheel/./mmtbx/tls copying build/lib/mmtbx/tls/ladp.py -> build/bdist.linux-x86_64/wheel/./mmtbx/tls copying build/lib/mmtbx/tls/perm15.py -> build/bdist.linux-x86_64/wheel/./mmtbx/tls copying build/lib/mmtbx/tls/optimise_amplitudes.py -> build/bdist.linux-x86_64/wheel/./mmtbx/tls copying build/lib/mmtbx/tls/tools.py -> build/bdist.linux-x86_64/wheel/./mmtbx/tls copying build/lib/mmtbx/tls/analysis.py -> build/bdist.linux-x86_64/wheel/./mmtbx/tls copying build/lib/mmtbx/tls/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/tls copying build/lib/mmtbx/tls/tls_as_xyz.py -> build/bdist.linux-x86_64/wheel/./mmtbx/tls copying build/lib/mmtbx/tls/command_line.py -> build/bdist.linux-x86_64/wheel/./mmtbx/tls copying build/lib/mmtbx/tls/utils.py -> build/bdist.linux-x86_64/wheel/./mmtbx/tls creating build/bdist.linux-x86_64/wheel/mmtbx/f_model copying build/lib/mmtbx/f_model/f_model.py -> build/bdist.linux-x86_64/wheel/./mmtbx/f_model copying build/lib/mmtbx/f_model/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/f_model copying build/lib/mmtbx/f_model/f_model_info.py -> build/bdist.linux-x86_64/wheel/./mmtbx/f_model creating build/bdist.linux-x86_64/wheel/mmtbx/ions copying build/lib/mmtbx/ions/tst_pick_k.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ions copying build/lib/mmtbx/ions/environment.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ions copying build/lib/mmtbx/ions/tst_geometries.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ions copying build/lib/mmtbx/ions/tst_parameters.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ions copying build/lib/mmtbx/ions/tst_utils.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ions copying build/lib/mmtbx/ions/tst_pick_ca.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ions copying build/lib/mmtbx/ions/tst_validate_ca.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ions copying build/lib/mmtbx/ions/tst_pick_ca_svm.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ions copying build/lib/mmtbx/ions/tst_environment.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ions copying build/lib/mmtbx/ions/tst_pick_approx_zn.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ions copying build/lib/mmtbx/ions/halides.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ions copying build/lib/mmtbx/ions/tst_validate_mg.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ions copying build/lib/mmtbx/ions/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ions copying build/lib/mmtbx/ions/tst_pick_mg.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ions copying build/lib/mmtbx/ions/geometry.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ions copying build/lib/mmtbx/ions/tst_pickle.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ions copying build/lib/mmtbx/ions/identify.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ions copying build/lib/mmtbx/ions/build.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ions copying build/lib/mmtbx/ions/tst_symmetry_axis.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ions creating build/bdist.linux-x86_64/wheel/mmtbx/ions/svm copying build/lib/mmtbx/ions/svm/dump_sites.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ions/svm copying build/lib/mmtbx/ions/svm/tst_classifier_01.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ions/svm copying build/lib/mmtbx/ions/svm/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ions/svm copying build/lib/mmtbx/ions/svm/tst_classifier_02.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ions/svm copying build/lib/mmtbx/ions/svm/utils.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ions/svm copying build/lib/mmtbx/ions/utils.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ions creating build/bdist.linux-x86_64/wheel/mmtbx/density_modification copying build/lib/mmtbx/density_modification/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/density_modification copying build/lib/mmtbx/density_modification/tst_density_modification.py -> build/bdist.linux-x86_64/wheel/./mmtbx/density_modification creating build/bdist.linux-x86_64/wheel/mmtbx/polygon copying build/lib/mmtbx/polygon/tst_polygon_data.py -> build/bdist.linux-x86_64/wheel/./mmtbx/polygon copying build/lib/mmtbx/polygon/tst_gui.py -> build/bdist.linux-x86_64/wheel/./mmtbx/polygon copying build/lib/mmtbx/polygon/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/polygon copying build/lib/mmtbx/polygon/output.py -> build/bdist.linux-x86_64/wheel/./mmtbx/polygon copying build/lib/mmtbx/polygon/tst.py -> build/bdist.linux-x86_64/wheel/./mmtbx/polygon creating build/bdist.linux-x86_64/wheel/mmtbx/regression copying build/lib/mmtbx/regression/tst_clashes.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_polder_box.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_anomalous_substructure.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_find_ncs.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_mtz2map.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_polder_1.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_cif_as_mtz_wavelengths.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_altloc_chain_break.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_table_one.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_apply_cif_restraints.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_model_vs_sequence.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_multi_residue_class.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_reduce.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_process_predicted_model.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_validation_summary.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_metal_link_1.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_maps_misc.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_origin_ids.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_arginine_geometry.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_command_line_input.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_cc_star.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_mmtbx_refinement_wrappers_1.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_fmodel_2.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_find_ss_structure_cif.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_fmodel_fd.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_sampled_model_density.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_rigid_bond_test.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_refine_anomalous_substructure.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_reduce_timeout.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/make_fake_anomalous_data.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_validate_ligands_2.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_msa.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_schrodinger_interface.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_geo_min_restraints_phil.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_adp_restraints.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_utils.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_domains_from_pae.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression creating build/bdist.linux-x86_64/wheel/mmtbx/regression/tls copying build/lib/mmtbx/regression/tls/tst_u_tls_vs_u_ens_01.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/tls copying build/lib/mmtbx/regression/tls/tst_u_tls_vs_u_ens_00.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/tls copying build/lib/mmtbx/regression/tls/tst_tls_as_xyz.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/tls copying build/lib/mmtbx/regression/tls/tst_u_tls_vs_u_ens_03.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/tls copying build/lib/mmtbx/regression/tls/tst_tls_utils.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/tls copying build/lib/mmtbx/regression/tls/tst_u_tls_vs_u_ens_04.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/tls copying build/lib/mmtbx/regression/tls/tst_u_tls_vs_u_ens_02.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/tls copying build/lib/mmtbx/regression/tls/tst_get_t_scheme.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/tls copying build/lib/mmtbx/regression/tls/tst_tls_analysis.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/tls copying build/lib/mmtbx/regression/tls/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/tls copying build/lib/mmtbx/regression/tls/tst_tls_refinement_fft.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/tls copying build/lib/mmtbx/regression/tls/tst_formula_t_S_10_vs_11_4muy.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/tls copying build/lib/mmtbx/regression/tls/tst_tls.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/tls copying build/lib/mmtbx/regression/tls/tst_formula_t_S_10_vs_11_2igd.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/tls copying build/lib/mmtbx/regression/tls/tst_tls_optimise_amplitudes.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/tls copying build/lib/mmtbx/regression/tst_fmodel_no_cryst1.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_mmtbx_refinement_wrappers_2.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_ribbons.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_geometry_minimization.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_regularize_from_pdb.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_isomorphous_difference_misc.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_fmodel_misc.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_special_term_at_end.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_polder_ccs.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_polder_2.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_add_h_to_water.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_models_to_from_chains.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_process_predicted_model_cif.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_helix_sheet_recs_as_pdb_files.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_mmtbx_refinement_wrappers.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_reduce_cryoem_resolution.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_polder.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_prune_model.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_loop_closure.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_fmodel_and_dm.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_regularize_from_pdb_cif.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression creating build/bdist.linux-x86_64/wheel/mmtbx/regression/model copying build/lib/mmtbx/regression/model/tst_restrain_selection_to_self_or_neighbors.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/model copying build/lib/mmtbx/regression/model/tst_model_utils_merge_models.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/model copying build/lib/mmtbx/regression/model/tst_model_2.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/model copying build/lib/mmtbx/regression/model/tst_model_merge.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/model copying build/lib/mmtbx/regression/model/tst_model_remove_alternative_conformations.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/model copying build/lib/mmtbx/regression/model/tst_model_dedeuterate.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/model copying build/lib/mmtbx/regression/model/tst_model_cart_ref_restraints.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/model copying build/lib/mmtbx/regression/model/tst_model_neutralize_scatterers.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/model copying build/lib/mmtbx/regression/model/tst_model_biomt_mtrix.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/model copying build/lib/mmtbx/regression/model/tst_model_biomt_mtrix_2.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/model copying build/lib/mmtbx/regression/model/tst_model_ramachandran.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/model copying build/lib/mmtbx/regression/model/tst_model.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/model copying build/lib/mmtbx/regression/model/tst_model_symmetry.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/model copying build/lib/mmtbx/regression/model/tst_model_pairs_within.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/model copying build/lib/mmtbx/regression/model/tst_model_mtrix.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/model copying build/lib/mmtbx/regression/model/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/model copying build/lib/mmtbx/regression/model/tst_model_get_vdw_radii.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/model copying build/lib/mmtbx/regression/model/tst_model_set_hydrogen_bond_length.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/model copying build/lib/mmtbx/regression/model/tst_model_ncs.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/model copying build/lib/mmtbx/regression/model/tst_model_tors_ref_restraints.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/model copying build/lib/mmtbx/regression/tst_altloc_remediate.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_probe.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_map_model_cc.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_find_ss_structure.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_rank_scale_map.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_chain_comparison.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_polder_4.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_examples.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_sequence_validation.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_scattering_type_registry.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_add_arrows_on_plot.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_scattering_table.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_flipping_his.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_dynamics_cli.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_polder_3.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_alignment.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_real_space_correlation.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_model_vs_map.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_chain_comparison_cif.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_angle.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_ligand_ncs.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_fmodel.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_sort_hetatms.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression creating build/bdist.linux-x86_64/wheel/mmtbx/regression/ncs copying build/lib/mmtbx/regression/ncs/tst_ncs_search_flips.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/ncs copying build/lib/mmtbx/regression/ncs/tst_geometry_minimization_ncs_constraints.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/ncs copying build/lib/mmtbx/regression/ncs/tst_restraints.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/ncs copying build/lib/mmtbx/regression/ncs/tst_ncs_utils.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/ncs copying build/lib/mmtbx/regression/ncs/tst_ncs_search.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/ncs copying build/lib/mmtbx/regression/ncs/tst_minimization_ncs_constraints_real_space.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/ncs copying build/lib/mmtbx/regression/ncs/tst_minimization_ncs_constraints.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/ncs copying build/lib/mmtbx/regression/ncs/tst_minimization_ncs_constraints3.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/ncs copying build/lib/mmtbx/regression/ncs/tst_ncs_restraints_group_list.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/ncs copying build/lib/mmtbx/regression/ncs/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/ncs copying build/lib/mmtbx/regression/ncs/tst_minimization_ncs_constraints2.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression/ncs copying build/lib/mmtbx/regression/tst_domains_from_pae_cif.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_map_type_parser.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_holton_geometry_validation.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_validate_ligands.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_cis_trans_peptide_link.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_psi_phi_extraction.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_minimize_chain.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_ml_estimate.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_rdkit_utils_fragmentation.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_statistics_output.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_model_map.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_ringer.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_pdbtools.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_lrv.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression copying build/lib/mmtbx/regression/tst_superpose.py -> build/bdist.linux-x86_64/wheel/./mmtbx/regression creating build/bdist.linux-x86_64/wheel/mmtbx/geometry_restraints copying build/lib/mmtbx/geometry_restraints/quantum_restraints_manager.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry_restraints copying build/lib/mmtbx/geometry_restraints/tst_c_beta_restraints.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry_restraints copying build/lib/mmtbx/geometry_restraints/tst_manager.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry_restraints copying build/lib/mmtbx/geometry_restraints/tst_geo_file_parsing.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry_restraints creating build/bdist.linux-x86_64/wheel/mmtbx/geometry_restraints/torsion_restraints copying build/lib/mmtbx/geometry_restraints/torsion_restraints/tst_reference_model.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry_restraints/torsion_restraints copying build/lib/mmtbx/geometry_restraints/torsion_restraints/rotamer_search.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry_restraints/torsion_restraints copying build/lib/mmtbx/geometry_restraints/torsion_restraints/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry_restraints/torsion_restraints copying build/lib/mmtbx/geometry_restraints/torsion_restraints/tst_reference_model_ligands.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry_restraints/torsion_restraints copying build/lib/mmtbx/geometry_restraints/torsion_restraints/tst_torsion_ncs.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry_restraints/torsion_restraints copying build/lib/mmtbx/geometry_restraints/torsion_restraints/torsion_ncs.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry_restraints/torsion_restraints copying build/lib/mmtbx/geometry_restraints/torsion_restraints/reference_model.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry_restraints/torsion_restraints copying build/lib/mmtbx/geometry_restraints/torsion_restraints/utils.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry_restraints/torsion_restraints copying build/lib/mmtbx/geometry_restraints/qm_manager.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry_restraints copying build/lib/mmtbx/geometry_restraints/tst_ramachandran.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry_restraints copying build/lib/mmtbx/geometry_restraints/tst_reference_coordinate2.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry_restraints copying build/lib/mmtbx/geometry_restraints/external.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry_restraints copying build/lib/mmtbx/geometry_restraints/reference.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry_restraints copying build/lib/mmtbx/geometry_restraints/c_beta.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry_restraints copying build/lib/mmtbx/geometry_restraints/mopac_manager.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry_restraints copying build/lib/mmtbx/geometry_restraints/geo_file_parsing.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry_restraints copying build/lib/mmtbx/geometry_restraints/base_qm_manager.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry_restraints copying build/lib/mmtbx/geometry_restraints/quantum_interface.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry_restraints copying build/lib/mmtbx/geometry_restraints/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry_restraints copying build/lib/mmtbx/geometry_restraints/afitt.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry_restraints copying build/lib/mmtbx/geometry_restraints/tst_reference_coordinate.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry_restraints copying build/lib/mmtbx/geometry_restraints/ramachandran.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry_restraints copying build/lib/mmtbx/geometry_restraints/qi_utils.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry_restraints copying build/lib/mmtbx/geometry_restraints/orca_manager.py -> build/bdist.linux-x86_64/wheel/./mmtbx/geometry_restraints creating build/bdist.linux-x86_64/wheel/mmtbx/scaling copying build/lib/mmtbx/scaling/remove_outliers.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/bayesian_estimator.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/relative_wilson.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/tst_xtriage_twin_analyses.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/relative_scaling.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/plan_sad_experiment.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/pair_analyses.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/twin_analyses.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/xtriage.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/pre_scale.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/sigmaa_estimation.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/thorough_outlier_test.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/tst_scaling.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/absence_likelihood.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/tst_outlier.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/massage_twin_detwin_data.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/tst_sigmaa.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/absolute_scaling.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/random_omit.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/data_statistics.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/make_param.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/fa_estimation.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/matthews.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/twmad_scale.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/tst_xtriage.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/tst_bayesian_estimator.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/absences.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/tst_massage_data.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/ta_alpha_beta_calc.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/outlier_plots.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/tst_mean_f_rms_f.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/outlier_rejection.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/mean_f_rms_f.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/tst_plan_sad_experiment.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/basic_analyses.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/scaling/tst_absences.py -> build/bdist.linux-x86_64/wheel/./mmtbx/scaling copying build/lib/mmtbx/arrays.py -> build/bdist.linux-x86_64/wheel/./mmtbx copying build/lib/mmtbx/process_predicted_model.py -> build/bdist.linux-x86_64/wheel/./mmtbx creating build/bdist.linux-x86_64/wheel/mmtbx/disorder copying build/lib/mmtbx/disorder/tst_analyze_model.py -> build/bdist.linux-x86_64/wheel/./mmtbx/disorder copying build/lib/mmtbx/disorder/tst_backbone.py -> build/bdist.linux-x86_64/wheel/./mmtbx/disorder copying build/lib/mmtbx/disorder/analyze_model.py -> build/bdist.linux-x86_64/wheel/./mmtbx/disorder copying build/lib/mmtbx/disorder/backbone.py -> build/bdist.linux-x86_64/wheel/./mmtbx/disorder copying build/lib/mmtbx/disorder/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/disorder copying build/lib/mmtbx/disorder/tst.py -> build/bdist.linux-x86_64/wheel/./mmtbx/disorder creating build/bdist.linux-x86_64/wheel/mmtbx/wwpdb copying build/lib/mmtbx/wwpdb/tst_rcsb_entry_request.py -> build/bdist.linux-x86_64/wheel/./mmtbx/wwpdb copying build/lib/mmtbx/wwpdb/rcsb_entry_request.py -> build/bdist.linux-x86_64/wheel/./mmtbx/wwpdb copying build/lib/mmtbx/wwpdb/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/wwpdb copying build/lib/mmtbx/wwpdb/rcsb_web_services.py -> build/bdist.linux-x86_64/wheel/./mmtbx/wwpdb copying build/lib/mmtbx/wwpdb/tst_rcsb_web_services.py -> build/bdist.linux-x86_64/wheel/./mmtbx/wwpdb copying build/lib/mmtbx/clashes.py -> build/bdist.linux-x86_64/wheel/./mmtbx creating build/bdist.linux-x86_64/wheel/mmtbx/pair_interaction copying build/lib/mmtbx/pair_interaction/pair_interaction.py -> build/bdist.linux-x86_64/wheel/./mmtbx/pair_interaction copying build/lib/mmtbx/pair_interaction/tst_04.py -> build/bdist.linux-x86_64/wheel/./mmtbx/pair_interaction copying build/lib/mmtbx/pair_interaction/tst_00.py -> build/bdist.linux-x86_64/wheel/./mmtbx/pair_interaction copying build/lib/mmtbx/pair_interaction/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/pair_interaction copying build/lib/mmtbx/pair_interaction/tst_01.py -> build/bdist.linux-x86_64/wheel/./mmtbx/pair_interaction copying build/lib/mmtbx/pair_interaction/tst_02.py -> build/bdist.linux-x86_64/wheel/./mmtbx/pair_interaction copying build/lib/mmtbx/pair_interaction/tst_05.py -> build/bdist.linux-x86_64/wheel/./mmtbx/pair_interaction copying build/lib/mmtbx/pair_interaction/tst_03.py -> build/bdist.linux-x86_64/wheel/./mmtbx/pair_interaction creating build/bdist.linux-x86_64/wheel/mmtbx/refinement copying build/lib/mmtbx/refinement/rigid_body.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/refinement/flip_peptide_side_chain.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/refinement/tst_real_space_simple.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/refinement/minimization_ncs_constraints.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/refinement/weights_params.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/refinement/group.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/refinement/energy_monitor.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/refinement/weights.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/refinement/tst_refinement_flags.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/refinement/wx_tardy_pdb.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement creating build/bdist.linux-x86_64/wheel/mmtbx/refinement/ensemble_refinement copying build/lib/mmtbx/refinement/ensemble_refinement/ensemble_utils.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/ensemble_refinement copying build/lib/mmtbx/refinement/ensemble_refinement/ensemble_probability.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/ensemble_refinement copying build/lib/mmtbx/refinement/ensemble_refinement/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/ensemble_refinement copying build/lib/mmtbx/refinement/tst_select_best_starting_model.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/refinement/select_best_starting_model.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/refinement/tst_rigid_body.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/refinement/minimization_monitor.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/refinement/adp_refinement.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/refinement/minimization.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/refinement/tst_occupancy_selections.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/refinement/geometry_minimization.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/refinement/tst_rigid_body_groups_from_pdb_chains.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/refinement/tst_misc.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/refinement/tst_anomalous_scatterer_groups.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/refinement/anomalous_scatterer_groups.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/refinement/tst_fit_rotamers.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/refinement/wrappers.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/refinement/tst_group_2.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/refinement/print_statistics.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/refinement/occupancies.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/refinement/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/refinement/orca.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/refinement/inspect_tardy_trajectory.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement creating build/bdist.linux-x86_64/wheel/mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/tst_fit_residues_1.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/rigid_body.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/tst_aa_residue_axes_and_clusters.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/tst_fit_water.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/occupancy.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/explode_and_refine.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/individual_sites.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/tst_fit_residues_6.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/fit_small_molecule.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/tst_individual_sites_1.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/tst_rigid_body.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/tst_weight.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/tst_fit_residues_selection.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/tst_fit_residues_1H.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/tst_fit_residue_2.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/tst_fit_residues_4.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/tst_fit_residue_1.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/adp.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/tst_fit_residue_0H.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/fit_his.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/tst_individual_sites_3.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/fit_residues.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/tst_fit_residue_0.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/tst_fit_residue_3.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/tst_fit_residues_5.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/tst_fit_residue_5.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/tst_fit_residues_3.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/tst_fit_residue_7.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/tst_fit_residue_4.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/tst_individual_sites_2.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/fit_water.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/tst_fit_residue_1H.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/tst_fit_residue_6.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/tst_monitor.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/weight.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/fit_residue.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/tst_fit_residues_2.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/utils.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/real_space/tst_fit_residue_full_sampling.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement/real_space copying build/lib/mmtbx/refinement/tardy.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/refinement/tst_group.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/refinement/data.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/refinement/targets.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/refinement/utils.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/refinement/restraints.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/refinement/calculators.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/refinement/refinement_flags.py -> build/bdist.linux-x86_64/wheel/./mmtbx/refinement copying build/lib/mmtbx/grow_density.py -> build/bdist.linux-x86_64/wheel/./mmtbx creating build/bdist.linux-x86_64/wheel/mmtbx/nci copying build/lib/mmtbx/nci/hbond.py -> build/bdist.linux-x86_64/wheel/./mmtbx/nci copying build/lib/mmtbx/nci/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/nci copying build/lib/mmtbx/nci/data_filtering.py -> build/bdist.linux-x86_64/wheel/./mmtbx/nci copying build/lib/mmtbx/nci/skew_kurt_plot.py -> build/bdist.linux-x86_64/wheel/./mmtbx/nci copying build/lib/mmtbx/nci/tst_hbond.py -> build/bdist.linux-x86_64/wheel/./mmtbx/nci creating build/bdist.linux-x86_64/wheel/mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/tst_paral_geo.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/tst_tyr_from_gly_and_bnz.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/tst_pdb_interpretation_5.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/tst_motif.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/tst_glyco_hand.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/server.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/tst_user_supplied_library.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/tst_glyco_coordination.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/conformation_dependent_restraints.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/linking_mixins.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/linking_utils.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/geostd_utils.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/mmtbx_utils.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/tst_pdb_interpretation.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/tst_correct_hydrogens.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/tst_pdb_interpretation_ncs_processing.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/rotamer_utils.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/tst_linking.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/linking_setup.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/tst_selection.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/cif_types.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/conv_v2_v3.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/tst_neutron_distance.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/tst_pdb_interpretation_3.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/hydrogen_restrictions.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/idealized_aa.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/tst_superpose_ideal.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/tst_cif_triage.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/tst_rna_sugar_pucker_analysis.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/tst_metal_coordination.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/pdb_interpretation.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/glyco_utils.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/tst_pdb_interpretation_4.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/bondlength_defaults.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/correct_hydrogen_geometries.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/tst_cif_types.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/rna_sugar_pucker_analysis.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/tst_all_cif_files.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/tst_rotamer_utils.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/tst_chg.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/tst_iron_sulfur_clusters.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/tst_deuterium_terminii.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/tst_server.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/tst_protein_interpretation.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/populate_auto_linking_origin_ids.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/cif_triage.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/tst_pdb_interpretation_2.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/tst_geo_reduce_for_tardy.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/tst_rna_dna_interpretation.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/tst_idealized_aa.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/tst_carbo_linking.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/monomer_library/glyco_chiral_values.py -> build/bdist.linux-x86_64/wheel/./mmtbx/monomer_library copying build/lib/mmtbx/xmanip_tasks.py -> build/bdist.linux-x86_64/wheel/./mmtbx creating build/bdist.linux-x86_64/wheel/mmtbx/ligands copying build/lib/mmtbx/ligands/tst_xtal_screens.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ligands copying build/lib/mmtbx/ligands/hierarchy_utils.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ligands copying build/lib/mmtbx/ligands/tst_ready_set_utils.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ligands copying build/lib/mmtbx/ligands/ready_set_utils.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ligands copying build/lib/mmtbx/ligands/chemistry.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ligands copying build/lib/mmtbx/ligands/ready_set_basics.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ligands copying build/lib/mmtbx/ligands/elbow_utils.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ligands copying build/lib/mmtbx/ligands/electrons.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ligands copying build/lib/mmtbx/ligands/rdkit_utils.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ligands copying build/lib/mmtbx/ligands/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ligands copying build/lib/mmtbx/ligands/tst_electron_scripting.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ligands copying build/lib/mmtbx/ligands/xtal_screens.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ligands creating build/bdist.linux-x86_64/wheel/mmtbx/model copying build/lib/mmtbx/model/model.py -> build/bdist.linux-x86_64/wheel/./mmtbx/model copying build/lib/mmtbx/model/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/model copying build/lib/mmtbx/model/statistics.py -> build/bdist.linux-x86_64/wheel/./mmtbx/model copying build/lib/mmtbx/model/utils.py -> build/bdist.linux-x86_64/wheel/./mmtbx/model copying build/lib/mmtbx/model/restraints.py -> build/bdist.linux-x86_64/wheel/./mmtbx/model copying build/lib/mmtbx/find_peaks.py -> build/bdist.linux-x86_64/wheel/./mmtbx creating build/bdist.linux-x86_64/wheel/mmtbx/kinemage copying build/lib/mmtbx/kinemage/validation.py -> build/bdist.linux-x86_64/wheel/./mmtbx/kinemage copying build/lib/mmtbx/kinemage/ribbons.py -> build/bdist.linux-x86_64/wheel/./mmtbx/kinemage copying build/lib/mmtbx/kinemage/nrubs.py -> build/bdist.linux-x86_64/wheel/./mmtbx/kinemage copying build/lib/mmtbx/kinemage/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/kinemage copying build/lib/mmtbx/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx creating build/bdist.linux-x86_64/wheel/mmtbx/utils copying build/lib/mmtbx/utils/rotatable_bonds.py -> build/bdist.linux-x86_64/wheel/./mmtbx/utils copying build/lib/mmtbx/utils/ntc.py -> build/bdist.linux-x86_64/wheel/./mmtbx/utils copying build/lib/mmtbx/utils/fab_elbow_angle.py -> build/bdist.linux-x86_64/wheel/./mmtbx/utils copying build/lib/mmtbx/utils/grid2d.py -> build/bdist.linux-x86_64/wheel/./mmtbx/utils copying build/lib/mmtbx/utils/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/utils copying build/lib/mmtbx/utils/tst_switch_rotamers.py -> build/bdist.linux-x86_64/wheel/./mmtbx/utils creating build/bdist.linux-x86_64/wheel/mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/cdl_database.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/tst_multi_residue_rna.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/omega_database.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/cdl_svl_database.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/mcl.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/altloc_weighting.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/hpdl_database.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/testing_utils.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/multi_residue_class.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/cdl_utils.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/LinkedResidues.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/cdl_setup.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/tst_enol_peptide.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/multi_base_class.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/tst_rdl.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/tst_mutli_residue.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/tst_hpdl.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/tst_pH_mechanism.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/tst_mcl_02.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/bond_angle_registry.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/tst_mcl_03.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/rdl_database.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/multi_residue_cdl_class.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/tst_omega_cdl.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/metal_coordination_library.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/rotamers.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/tst_cdl_nucleotides.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/check_cdl_database.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/tst_cis_c_n_ca.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/nucleotides.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/pH_dependent_restraints.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/tst_mcl_01.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/mcl_sf4_coordination.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/omega.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/density_dependent_restraints.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/histidines.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/tst_poly_ca_multi_residue.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/sf4_restraints.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/enol_peptide_restraints.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/investigate_rotamer_space.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/hydrogen_bonding.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/tst_cdl_esd.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/tst_cdl.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/tst_rna_dna_fragments.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library copying build/lib/mmtbx/conformation_dependent_library/utils.py -> build/bdist.linux-x86_64/wheel/./mmtbx/conformation_dependent_library creating build/bdist.linux-x86_64/wheel/mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/tst_add_hydrogen_8.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/specialised_hydrogen_atoms.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/validate_H.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/riding.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/tst_parameterization_2.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/connectivity.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/build_hydrogens.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/tst_riding_fd_5.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/tst_riding_fd_2.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/tst_riding_fd_3.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/tst_add_hydrogen_time.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/tst_parameterization_7.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/tst_add_hydrogen_7.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/parameterization.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/tst_parameterization_6.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/tst_validate_H.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/tst_add_hydrogen_9.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/tst_parameterization_4.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/tst_parameterization_9.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/tst_riding_fd_4.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/tst_parameterization_8.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/tst_add_hydrogen_1.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/tst_add_hydrogen.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/tst_parameterization_3.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/tst_riding_manager.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/reduce_hydrogen.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/tst_add_hydrogen_6.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/tst_add_hydrogen_2.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/tst_riding_minimize.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/neutron_utils.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/tst_add_hydrogen_5.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/tst.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/find.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/tst_connectivity.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/tst_add_hydrogen_0.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/tst_parameterization_1.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/tst_parameterization_5.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/tst_riding_coefficients.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/tst_riding_fd_1.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/tst_add_hydrogen_3.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/hydrogens/tst_add_hydrogen_4.py -> build/bdist.linux-x86_64/wheel/./mmtbx/hydrogens copying build/lib/mmtbx/run_tests.py -> build/bdist.linux-x86_64/wheel/./mmtbx copying build/lib/mmtbx/real_space_correlation.py -> build/bdist.linux-x86_64/wheel/./mmtbx copying build/lib/mmtbx/superpose.py -> build/bdist.linux-x86_64/wheel/./mmtbx creating build/bdist.linux-x86_64/wheel/mmtbx/rsr copying build/lib/mmtbx/rsr/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/rsr copying build/lib/mmtbx/rsr/tst.py -> build/bdist.linux-x86_64/wheel/./mmtbx/rsr creating build/bdist.linux-x86_64/wheel/mmtbx/building copying build/lib/mmtbx/building/tst_extend_sidechains_2.py -> build/bdist.linux-x86_64/wheel/./mmtbx/building copying build/lib/mmtbx/building/extend_sidechains.py -> build/bdist.linux-x86_64/wheel/./mmtbx/building creating build/bdist.linux-x86_64/wheel/mmtbx/building/loop_closure copying build/lib/mmtbx/building/loop_closure/ccd.py -> build/bdist.linux-x86_64/wheel/./mmtbx/building/loop_closure copying build/lib/mmtbx/building/loop_closure/berkeley_ramalyze.py -> build/bdist.linux-x86_64/wheel/./mmtbx/building/loop_closure copying build/lib/mmtbx/building/loop_closure/starting_conformations.py -> build/bdist.linux-x86_64/wheel/./mmtbx/building/loop_closure copying build/lib/mmtbx/building/loop_closure/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/building/loop_closure copying build/lib/mmtbx/building/loop_closure/utils.py -> build/bdist.linux-x86_64/wheel/./mmtbx/building/loop_closure copying build/lib/mmtbx/building/tst_extend_sidechains.py -> build/bdist.linux-x86_64/wheel/./mmtbx/building copying build/lib/mmtbx/building/minimize_chain.py -> build/bdist.linux-x86_64/wheel/./mmtbx/building copying build/lib/mmtbx/building/loop_idealization.py -> build/bdist.linux-x86_64/wheel/./mmtbx/building creating build/bdist.linux-x86_64/wheel/mmtbx/building/ligands copying build/lib/mmtbx/building/ligands/tst_00.py -> build/bdist.linux-x86_64/wheel/./mmtbx/building/ligands copying build/lib/mmtbx/building/ligands/lifi.py -> build/bdist.linux-x86_64/wheel/./mmtbx/building/ligands copying build/lib/mmtbx/building/ligands/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/building/ligands copying build/lib/mmtbx/building/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/building copying build/lib/mmtbx/building/merge_models.py -> build/bdist.linux-x86_64/wheel/./mmtbx/building copying build/lib/mmtbx/building/cablam_idealization.py -> build/bdist.linux-x86_64/wheel/./mmtbx/building creating build/bdist.linux-x86_64/wheel/mmtbx/ringer copying build/lib/mmtbx/ringer/em_rscc.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ringer copying build/lib/mmtbx/ringer/tst_em_rscc.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ringer copying build/lib/mmtbx/ringer/em_rolling.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ringer copying build/lib/mmtbx/ringer/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ringer copying build/lib/mmtbx/ringer/em_scoring.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ringer copying build/lib/mmtbx/ringer/tst_emringer.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ringer copying build/lib/mmtbx/ringer/emringer.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ringer creating build/bdist.linux-x86_64/wheel/mmtbx/alignment copying build/lib/mmtbx/alignment/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/alignment creating build/bdist.linux-x86_64/wheel/mmtbx/dynamics copying build/lib/mmtbx/dynamics/ensemble_cd.py -> build/bdist.linux-x86_64/wheel/./mmtbx/dynamics copying build/lib/mmtbx/dynamics/tst_sa.py -> build/bdist.linux-x86_64/wheel/./mmtbx/dynamics copying build/lib/mmtbx/dynamics/simulated_annealing.py -> build/bdist.linux-x86_64/wheel/./mmtbx/dynamics copying build/lib/mmtbx/dynamics/cartesian_dynamics.py -> build/bdist.linux-x86_64/wheel/./mmtbx/dynamics copying build/lib/mmtbx/dynamics/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/dynamics copying build/lib/mmtbx/dynamics/constants.py -> build/bdist.linux-x86_64/wheel/./mmtbx/dynamics copying build/lib/mmtbx/dynamics/tst_cartesian_dynamics.py -> build/bdist.linux-x86_64/wheel/./mmtbx/dynamics creating build/bdist.linux-x86_64/wheel/mmtbx/ias copying build/lib/mmtbx/ias/tst_ias.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ias copying build/lib/mmtbx/ias/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ias creating build/bdist.linux-x86_64/wheel/mmtbx/bulk_solvent copying build/lib/mmtbx/bulk_solvent/kbu_refinery.py -> build/bdist.linux-x86_64/wheel/./mmtbx/bulk_solvent copying build/lib/mmtbx/bulk_solvent/tst_bulk_solvent_and_scaling.py -> build/bdist.linux-x86_64/wheel/./mmtbx/bulk_solvent copying build/lib/mmtbx/bulk_solvent/scaler.py -> build/bdist.linux-x86_64/wheel/./mmtbx/bulk_solvent copying build/lib/mmtbx/bulk_solvent/tst_kb_sol_u_star_fd.py -> build/bdist.linux-x86_64/wheel/./mmtbx/bulk_solvent copying build/lib/mmtbx/bulk_solvent/tst_mosaic.py -> build/bdist.linux-x86_64/wheel/./mmtbx/bulk_solvent copying build/lib/mmtbx/bulk_solvent/multi_mask_bulk_solvent.py -> build/bdist.linux-x86_64/wheel/./mmtbx/bulk_solvent copying build/lib/mmtbx/bulk_solvent/f_model_all_scales.py -> build/bdist.linux-x86_64/wheel/./mmtbx/bulk_solvent copying build/lib/mmtbx/bulk_solvent/example.py -> build/bdist.linux-x86_64/wheel/./mmtbx/bulk_solvent copying build/lib/mmtbx/bulk_solvent/tst_fit_kexpb_to_ktotal.py -> build/bdist.linux-x86_64/wheel/./mmtbx/bulk_solvent copying build/lib/mmtbx/bulk_solvent/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/bulk_solvent copying build/lib/mmtbx/bulk_solvent/tst_flat_nonuniform.py -> build/bdist.linux-x86_64/wheel/./mmtbx/bulk_solvent copying build/lib/mmtbx/bulk_solvent/example2.py -> build/bdist.linux-x86_64/wheel/./mmtbx/bulk_solvent copying build/lib/mmtbx/bulk_solvent/tst_scaler.py -> build/bdist.linux-x86_64/wheel/./mmtbx/bulk_solvent copying build/lib/mmtbx/bulk_solvent/tst_aniso_scaler.py -> build/bdist.linux-x86_64/wheel/./mmtbx/bulk_solvent copying build/lib/mmtbx/bulk_solvent/mosaic.py -> build/bdist.linux-x86_64/wheel/./mmtbx/bulk_solvent copying build/lib/mmtbx/bulk_solvent/bulk_solvent_and_scaling.py -> build/bdist.linux-x86_64/wheel/./mmtbx/bulk_solvent creating build/bdist.linux-x86_64/wheel/mmtbx/max_lik copying build/lib/mmtbx/max_lik/tst_max_lik.py -> build/bdist.linux-x86_64/wheel/./mmtbx/max_lik copying build/lib/mmtbx/max_lik/tst_maxlik.py -> build/bdist.linux-x86_64/wheel/./mmtbx/max_lik copying build/lib/mmtbx/max_lik/max_like_non_uniform.py -> build/bdist.linux-x86_64/wheel/./mmtbx/max_lik copying build/lib/mmtbx/max_lik/maxlik.py -> build/bdist.linux-x86_64/wheel/./mmtbx/max_lik copying build/lib/mmtbx/max_lik/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/max_lik copying build/lib/mmtbx/libtbx_refresh.py -> build/bdist.linux-x86_64/wheel/./mmtbx copying build/lib/mmtbx/f_model_info.py -> build/bdist.linux-x86_64/wheel/./mmtbx creating build/bdist.linux-x86_64/wheel/mmtbx/ncs copying build/lib/mmtbx/ncs/ligands.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ncs copying build/lib/mmtbx/ncs/cartesian_restraints.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ncs copying build/lib/mmtbx/ncs/tncs.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ncs copying build/lib/mmtbx/ncs/ncs_params.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ncs copying build/lib/mmtbx/ncs/ncs_search.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ncs copying build/lib/mmtbx/ncs/ncs.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ncs copying build/lib/mmtbx/ncs/ncs_utils.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ncs copying build/lib/mmtbx/ncs/ncs_restraints_group_list.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ncs copying build/lib/mmtbx/ncs/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/ncs creating build/bdist.linux-x86_64/wheel/mmtbx/programs copying build/lib/mmtbx/programs/rna_validate_bonds.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/fmodel.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/rotalyze.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/pdbtools.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/barbed_wire_analysis.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/arginine_geometry.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/rama_z.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/suitename.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/polder.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/model_vs_sequence.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/reduce_cryoem_resolution.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/comparama.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/mask.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/pdb_as_cif.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/hbond.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/chiral_validation.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/cbetadev.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/xtrapol8.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/taam_minus_iam.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/cablam.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/undowser2.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/mp_validate_bonds.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/atom_valence_simple.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/ss_validation.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/ligand_restraints_validation.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/clashscore.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/suitename_old.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/ramalyze.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/water_b_factors.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/debug_riding.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/holton_geometry_validation.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/elbow_services.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/next_gen_atom_typing.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/ss_idealization.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/process_predicted_model.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/probe2.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/ribbons.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/atom_selection.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/reduce2.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/undowser.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/rna_validate_suites.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/hydrogenate.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/probescore_ligand.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/quantum_interface.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/matthews.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/real_space_correlation.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/cablam_idealization.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/rna_validate_puckers.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/clashscore2.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/validate_ligands.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/fetch.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/rna_validate.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/prepare_pdb_deposition.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/nonbonded_overlaps.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/emringer.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs copying build/lib/mmtbx/programs/omegalyze.py -> build/bdist.linux-x86_64/wheel/./mmtbx/programs creating build/bdist.linux-x86_64/wheel/mmtbx/real_space copying build/lib/mmtbx/real_space/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/real_space copying build/lib/mmtbx/real_space/tst.py -> build/bdist.linux-x86_64/wheel/./mmtbx/real_space creating build/bdist.linux-x86_64/wheel/mmtbx/suitename copying build/lib/mmtbx/suitename/suitealyze.py -> build/bdist.linux-x86_64/wheel/./mmtbx/suitename copying build/lib/mmtbx/suitename/suitename.py -> build/bdist.linux-x86_64/wheel/./mmtbx/suitename copying build/lib/mmtbx/suitename/suiteninput.py -> build/bdist.linux-x86_64/wheel/./mmtbx/suitename copying build/lib/mmtbx/suitename/diangle.py -> build/bdist.linux-x86_64/wheel/./mmtbx/suitename copying build/lib/mmtbx/suitename/suitenamedefs.py -> build/bdist.linux-x86_64/wheel/./mmtbx/suitename copying build/lib/mmtbx/suitename/dualparse.py -> build/bdist.linux-x86_64/wheel/./mmtbx/suitename copying build/lib/mmtbx/suitename/mainchain.py -> build/bdist.linux-x86_64/wheel/./mmtbx/suitename copying build/lib/mmtbx/suitename/transdent.py -> build/bdist.linux-x86_64/wheel/./mmtbx/suitename copying build/lib/mmtbx/suitename/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/suitename copying build/lib/mmtbx/suitename/suites.py -> build/bdist.linux-x86_64/wheel/./mmtbx/suitename copying build/lib/mmtbx/suitename/suitenout.py -> build/bdist.linux-x86_64/wheel/./mmtbx/suitename copying build/lib/mmtbx/suitename/suiteninit.py -> build/bdist.linux-x86_64/wheel/./mmtbx/suitename creating build/bdist.linux-x86_64/wheel/mmtbx/validation copying build/lib/mmtbx/validation/cbd_utils.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation copying build/lib/mmtbx/validation/ligands.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation copying build/lib/mmtbx/validation/rotalyze.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation copying build/lib/mmtbx/validation/barbed_wire_analysis.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation copying build/lib/mmtbx/validation/comprehensive_residue.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation copying build/lib/mmtbx/validation/rama_z.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation copying build/lib/mmtbx/validation/fav_lists.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation copying build/lib/mmtbx/validation/comparama.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation creating build/bdist.linux-x86_64/wheel/mmtbx/validation/ramachandran copying build/lib/mmtbx/validation/ramachandran/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/ramachandran copying build/lib/mmtbx/validation/ramachandran/convert_from_text.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/ramachandran copying build/lib/mmtbx/validation/cbetadev.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation copying build/lib/mmtbx/validation/mean_devs_PRO_phi_psi.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation copying build/lib/mmtbx/validation/cablam.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation copying build/lib/mmtbx/validation/undowser2.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation copying build/lib/mmtbx/validation/datasets.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation copying build/lib/mmtbx/validation/mp_validate_bonds.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation copying build/lib/mmtbx/validation/mean_devs_others_phi_psi.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation copying build/lib/mmtbx/validation/clashscore.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation copying build/lib/mmtbx/validation/ramalyze.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation copying build/lib/mmtbx/validation/mean_devs_VAL_THR_ILE_phi_psi.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation copying build/lib/mmtbx/validation/holton_geometry_validation.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation creating build/bdist.linux-x86_64/wheel/mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_hydrogen_addition_clashscore.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_ramalyze2.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_waters.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_molprobity_4.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_clashscore_2.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_rama_z_02.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_mp_validate_bonds.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_molprobity_2.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_rna_validate.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_cablam.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_ramalyze_rare.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_ramalyze.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_restraints.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_molprobity_5.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_experimental.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_do_flips_clashscore.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_molprobity_1.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_model_properties.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_find_region_max_value.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_mp_geo_endtoend.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_omegalyze.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_cablam_2.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_rotalyze.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_cbetadev_02.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_molprobity_arguments.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_suitename.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_mp_geo_chiral_volume_cases.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_symmetry_SS.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_mp_geo.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_undowser2.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_molprobity_3.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_clashscore.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_rama_z_01.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_undowser.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_keep_hydrogens.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_cbetadev.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/run_restraints.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/regression/tst_chiral_validation.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/regression copying build/lib/mmtbx/validation/sequence.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation copying build/lib/mmtbx/validation/analyze_peptides.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation copying build/lib/mmtbx/validation/undowser.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation copying build/lib/mmtbx/validation/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation copying build/lib/mmtbx/validation/experimental.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation copying build/lib/mmtbx/validation/waters.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation copying build/lib/mmtbx/validation/model_properties.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation copying build/lib/mmtbx/validation/ensembles.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation copying build/lib/mmtbx/validation/clashscore2.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation creating build/bdist.linux-x86_64/wheel/mmtbx/validation/molprobity copying build/lib/mmtbx/validation/molprobity/percentile_clashscore.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/molprobity copying build/lib/mmtbx/validation/molprobity/kinemage_templates.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/molprobity copying build/lib/mmtbx/validation/molprobity/probescore_ligand.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/molprobity copying build/lib/mmtbx/validation/molprobity/__init__.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/molprobity copying build/lib/mmtbx/validation/molprobity/percentile_mpscore.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/molprobity copying build/lib/mmtbx/validation/molprobity/mp_geo.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/molprobity copying build/lib/mmtbx/validation/molprobity/table_from_json.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation/molprobity copying build/lib/mmtbx/validation/phi_psi_2_data.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation copying build/lib/mmtbx/validation/graphics.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation copying build/lib/mmtbx/validation/chain_comparison.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation copying build/lib/mmtbx/validation/validate_ligands.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation copying build/lib/mmtbx/validation/rna_validate.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation copying build/lib/mmtbx/validation/convert_lists.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation copying build/lib/mmtbx/validation/utils.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation copying build/lib/mmtbx/validation/restraints.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation copying build/lib/mmtbx/validation/omegalyze.py -> build/bdist.linux-x86_64/wheel/./mmtbx/validation copying build/lib/mmtbx/invariant_domain.py -> build/bdist.linux-x86_64/wheel/./mmtbx copying build/lib/mmtbx/restraints.py -> build/bdist.linux-x86_64/wheel/./mmtbx copying build/lib/mmtbx/domains_from_pae.py -> build/bdist.linux-x86_64/wheel/./mmtbx creating build/bdist.linux-x86_64/wheel/fable creating build/bdist.linux-x86_64/wheel/fable/command_line copying build/lib/fable/command_line/show_calls.py -> build/bdist.linux-x86_64/wheel/./fable/command_line copying build/lib/fable/command_line/split.py -> build/bdist.linux-x86_64/wheel/./fable/command_line copying build/lib/fable/command_line/cout.py -> build/bdist.linux-x86_64/wheel/./fable/command_line copying build/lib/fable/command_line/read.py -> build/bdist.linux-x86_64/wheel/./fable/command_line copying build/lib/fable/command_line/insert_write_at_start_of_each_procedure.py -> build/bdist.linux-x86_64/wheel/./fable/command_line copying build/lib/fable/command_line/fem_include_search_paths.py -> build/bdist.linux-x86_64/wheel/./fable/command_line copying build/lib/fable/command_line/__init__.py -> build/bdist.linux-x86_64/wheel/./fable/command_line copying build/lib/fable/simple_compilation.py -> build/bdist.linux-x86_64/wheel/./fable copying build/lib/fable/intrinsics.py -> build/bdist.linux-x86_64/wheel/./fable copying build/lib/fable/tst_cout_compile.py -> build/bdist.linux-x86_64/wheel/./fable copying build/lib/fable/cout.py -> build/bdist.linux-x86_64/wheel/./fable copying build/lib/fable/equivalence.py -> build/bdist.linux-x86_64/wheel/./fable copying build/lib/fable/read.py -> build/bdist.linux-x86_64/wheel/./fable copying build/lib/fable/__init__.py -> build/bdist.linux-x86_64/wheel/./fable copying build/lib/fable/run_tests.py -> build/bdist.linux-x86_64/wheel/./fable copying build/lib/fable/tokenization.py -> build/bdist.linux-x86_64/wheel/./fable copying build/lib/fable/tst_equivalence.py -> build/bdist.linux-x86_64/wheel/./fable copying build/lib/fable/tst_read.py -> build/bdist.linux-x86_64/wheel/./fable copying build/lib/fable/tst_ext.py -> build/bdist.linux-x86_64/wheel/./fable copying build/lib/fable/utils.py -> build/bdist.linux-x86_64/wheel/./fable copying build/lib/fable/tst_cout.py -> build/bdist.linux-x86_64/wheel/./fable creating build/bdist.linux-x86_64/wheel/rstbx creating build/bdist.linux-x86_64/wheel/rstbx/command_line copying build/lib/rstbx/command_line/simage.solver.py -> build/bdist.linux-x86_64/wheel/./rstbx/command_line copying build/lib/rstbx/command_line/simage.explore_completeness.py -> build/bdist.linux-x86_64/wheel/./rstbx/command_line copying build/lib/rstbx/command_line/viewer.py -> build/bdist.linux-x86_64/wheel/./rstbx/command_line copying build/lib/rstbx/command_line/slip_viewer.py -> build/bdist.linux-x86_64/wheel/./rstbx/command_line copying build/lib/rstbx/command_line/simage.create.py -> build/bdist.linux-x86_64/wheel/./rstbx/command_line copying build/lib/rstbx/command_line/simage.wx_display.py -> build/bdist.linux-x86_64/wheel/./rstbx/command_line copying build/lib/rstbx/command_line/__init__.py -> build/bdist.linux-x86_64/wheel/./rstbx/command_line copying build/lib/rstbx/command_line/index.py -> build/bdist.linux-x86_64/wheel/./rstbx/command_line copying build/lib/rstbx/command_line/example_viewer.py -> build/bdist.linux-x86_64/wheel/./rstbx/command_line creating build/bdist.linux-x86_64/wheel/rstbx/symmetry copying build/lib/rstbx/symmetry/subgroup.py -> build/bdist.linux-x86_64/wheel/./rstbx/symmetry copying build/lib/rstbx/symmetry/__init__.py -> build/bdist.linux-x86_64/wheel/./rstbx/symmetry creating build/bdist.linux-x86_64/wheel/rstbx/symmetry/constraints copying build/lib/rstbx/symmetry/constraints/g_gradients.py -> build/bdist.linux-x86_64/wheel/./rstbx/symmetry/constraints copying build/lib/rstbx/symmetry/constraints/__init__.py -> build/bdist.linux-x86_64/wheel/./rstbx/symmetry/constraints copying build/lib/rstbx/symmetry/constraints/parameter_reduction.py -> build/bdist.linux-x86_64/wheel/./rstbx/symmetry/constraints copying build/lib/rstbx/symmetry/sgtbx_adaptor.py -> build/bdist.linux-x86_64/wheel/./rstbx/symmetry creating build/bdist.linux-x86_64/wheel/rstbx/dps_core copying build/lib/rstbx/dps_core/tst_iotbx_converter.py -> build/bdist.linux-x86_64/wheel/./rstbx/dps_core copying build/lib/rstbx/dps_core/cell_assessment.py -> build/bdist.linux-x86_64/wheel/./rstbx/dps_core copying build/lib/rstbx/dps_core/constrainment.py -> build/bdist.linux-x86_64/wheel/./rstbx/dps_core copying build/lib/rstbx/dps_core/basis_choice.py -> build/bdist.linux-x86_64/wheel/./rstbx/dps_core copying build/lib/rstbx/dps_core/lepage.py -> build/bdist.linux-x86_64/wheel/./rstbx/dps_core copying build/lib/rstbx/dps_core/__init__.py -> build/bdist.linux-x86_64/wheel/./rstbx/dps_core copying build/lib/rstbx/dps_core/sampling.py -> build/bdist.linux-x86_64/wheel/./rstbx/dps_core copying build/lib/rstbx/dps_core/zuoreduction.py -> build/bdist.linux-x86_64/wheel/./rstbx/dps_core creating build/bdist.linux-x86_64/wheel/rstbx/bandpass copying build/lib/rstbx/bandpass/simulated_annealing.py -> build/bdist.linux-x86_64/wheel/./rstbx/bandpass copying build/lib/rstbx/bandpass/__init__.py -> build/bdist.linux-x86_64/wheel/./rstbx/bandpass creating build/bdist.linux-x86_64/wheel/rstbx/bpcx copying build/lib/rstbx/bpcx/uc1_2.py -> build/bdist.linux-x86_64/wheel/./rstbx/bpcx copying build/lib/rstbx/bpcx/uc1_2a.py -> build/bdist.linux-x86_64/wheel/./rstbx/bpcx copying build/lib/rstbx/bpcx/uc1_2_positions.py -> build/bdist.linux-x86_64/wheel/./rstbx/bpcx copying build/lib/rstbx/bpcx/ersatz_misset.py -> build/bdist.linux-x86_64/wheel/./rstbx/bpcx copying build/lib/rstbx/bpcx/uc1_2_positions_idx.py -> build/bdist.linux-x86_64/wheel/./rstbx/bpcx creating build/bdist.linux-x86_64/wheel/rstbx/bpcx/detector_model copying build/lib/rstbx/bpcx/detector_model/instrument_specifics.py -> build/bdist.linux-x86_64/wheel/./rstbx/bpcx/detector_model copying build/lib/rstbx/bpcx/detector_model/tst_detector_model.py -> build/bdist.linux-x86_64/wheel/./rstbx/bpcx/detector_model copying build/lib/rstbx/bpcx/detector_model/__init__.py -> build/bdist.linux-x86_64/wheel/./rstbx/bpcx/detector_model copying build/lib/rstbx/bpcx/detector_model/detector.py -> build/bdist.linux-x86_64/wheel/./rstbx/bpcx/detector_model copying build/lib/rstbx/bpcx/compare_mosflm_xds.py -> build/bdist.linux-x86_64/wheel/./rstbx/bpcx copying build/lib/rstbx/bpcx/uc1_2_validate.py -> build/bdist.linux-x86_64/wheel/./rstbx/bpcx copying build/lib/rstbx/bpcx/__init__.py -> build/bdist.linux-x86_64/wheel/./rstbx/bpcx creating build/bdist.linux-x86_64/wheel/rstbx/outlier_spots copying build/lib/rstbx/outlier_spots/fit_distribution.py -> build/bdist.linux-x86_64/wheel/./rstbx/outlier_spots copying build/lib/rstbx/outlier_spots/__init__.py -> build/bdist.linux-x86_64/wheel/./rstbx/outlier_spots creating build/bdist.linux-x86_64/wheel/rstbx/new_horizons copying build/lib/rstbx/new_horizons/spot_shape.py -> build/bdist.linux-x86_64/wheel/./rstbx/new_horizons copying build/lib/rstbx/new_horizons/speckfinder.py -> build/bdist.linux-x86_64/wheel/./rstbx/new_horizons copying build/lib/rstbx/new_horizons/pixel_spread.py -> build/bdist.linux-x86_64/wheel/./rstbx/new_horizons copying build/lib/rstbx/new_horizons/stats_index.py -> build/bdist.linux-x86_64/wheel/./rstbx/new_horizons copying build/lib/rstbx/new_horizons/__init__.py -> build/bdist.linux-x86_64/wheel/./rstbx/new_horizons copying build/lib/rstbx/new_horizons/oscillation_shots.py -> build/bdist.linux-x86_64/wheel/./rstbx/new_horizons copying build/lib/rstbx/new_horizons/index.py -> build/bdist.linux-x86_64/wheel/./rstbx/new_horizons creating build/bdist.linux-x86_64/wheel/rstbx/simulation copying build/lib/rstbx/simulation/sim_utils.py -> build/bdist.linux-x86_64/wheel/./rstbx/simulation copying build/lib/rstbx/simulation/tst_xfel1_simple.py -> build/bdist.linux-x86_64/wheel/./rstbx/simulation copying build/lib/rstbx/simulation/sim_pdf.py -> build/bdist.linux-x86_64/wheel/./rstbx/simulation copying build/lib/rstbx/simulation/__init__.py -> build/bdist.linux-x86_64/wheel/./rstbx/simulation copying build/lib/rstbx/simulation/constants.py -> build/bdist.linux-x86_64/wheel/./rstbx/simulation creating build/bdist.linux-x86_64/wheel/rstbx/diffraction copying build/lib/rstbx/diffraction/tst_predict.py -> build/bdist.linux-x86_64/wheel/./rstbx/diffraction copying build/lib/rstbx/diffraction/tst_partial_derivatives.py -> build/bdist.linux-x86_64/wheel/./rstbx/diffraction copying build/lib/rstbx/diffraction/tst_ewald_sphere.py -> build/bdist.linux-x86_64/wheel/./rstbx/diffraction copying build/lib/rstbx/diffraction/__init__.py -> build/bdist.linux-x86_64/wheel/./rstbx/diffraction creating build/bdist.linux-x86_64/wheel/rstbx/diffraction/fastbragg copying build/lib/rstbx/diffraction/fastbragg/tst_utils_clustering.py -> build/bdist.linux-x86_64/wheel/./rstbx/diffraction/fastbragg copying build/lib/rstbx/diffraction/fastbragg/__init__.py -> build/bdist.linux-x86_64/wheel/./rstbx/diffraction/fastbragg copying build/lib/rstbx/diffraction/fastbragg/tst_bragg_minimal.py -> build/bdist.linux-x86_64/wheel/./rstbx/diffraction/fastbragg creating build/bdist.linux-x86_64/wheel/rstbx/dials_core copying build/lib/rstbx/dials_core/integration_core.py -> build/bdist.linux-x86_64/wheel/./rstbx/dials_core copying build/lib/rstbx/dials_core/__init__.py -> build/bdist.linux-x86_64/wheel/./rstbx/dials_core creating build/bdist.linux-x86_64/wheel/rstbx/array_family copying build/lib/rstbx/array_family/flex.py -> build/bdist.linux-x86_64/wheel/./rstbx/array_family copying build/lib/rstbx/array_family/__init__.py -> build/bdist.linux-x86_64/wheel/./rstbx/array_family creating build/bdist.linux-x86_64/wheel/rstbx/phil copying build/lib/rstbx/phil/scope.py -> build/bdist.linux-x86_64/wheel/./rstbx/phil copying build/lib/rstbx/phil/__init__.py -> build/bdist.linux-x86_64/wheel/./rstbx/phil copying build/lib/rstbx/phil/preferences.py -> build/bdist.linux-x86_64/wheel/./rstbx/phil copying build/lib/rstbx/phil/phil_preferences.py -> build/bdist.linux-x86_64/wheel/./rstbx/phil creating build/bdist.linux-x86_64/wheel/rstbx/apps copying build/lib/rstbx/apps/spot_markup.py -> build/bdist.linux-x86_64/wheel/./rstbx/apps copying build/lib/rstbx/apps/dual_resolution_helpers.py -> build/bdist.linux-x86_64/wheel/./rstbx/apps copying build/lib/rstbx/apps/slip_helpers.py -> build/bdist.linux-x86_64/wheel/./rstbx/apps creating build/bdist.linux-x86_64/wheel/rstbx/apps/stills copying build/lib/rstbx/apps/stills/stills_integration.py -> build/bdist.linux-x86_64/wheel/./rstbx/apps/stills copying build/lib/rstbx/apps/stills/dials_refinement_preceding_integration.py -> build/bdist.linux-x86_64/wheel/./rstbx/apps/stills copying build/lib/rstbx/apps/stills/simple_integration.py -> build/bdist.linux-x86_64/wheel/./rstbx/apps/stills copying build/lib/rstbx/apps/stills/util.py -> build/bdist.linux-x86_64/wheel/./rstbx/apps/stills copying build/lib/rstbx/apps/stills/__init__.py -> build/bdist.linux-x86_64/wheel/./rstbx/apps/stills copying build/lib/rstbx/apps/stills/deltapsi_refinement_preceding_integration.py -> build/bdist.linux-x86_64/wheel/./rstbx/apps/stills copying build/lib/rstbx/apps/__init__.py -> build/bdist.linux-x86_64/wheel/./rstbx/apps creating build/bdist.linux-x86_64/wheel/rstbx/cftbx copying build/lib/rstbx/cftbx/tst_coordinate_frame_converter.py -> build/bdist.linux-x86_64/wheel/./rstbx/cftbx copying build/lib/rstbx/cftbx/coordinate_frame_converter.py -> build/bdist.linux-x86_64/wheel/./rstbx/cftbx copying build/lib/rstbx/cftbx/coordinate_frame_helpers.py -> build/bdist.linux-x86_64/wheel/./rstbx/cftbx copying build/lib/rstbx/cftbx/__init__.py -> build/bdist.linux-x86_64/wheel/./rstbx/cftbx creating build/bdist.linux-x86_64/wheel/rstbx/simage copying build/lib/rstbx/simage/run_labelit_index.py -> build/bdist.linux-x86_64/wheel/./rstbx/simage copying build/lib/rstbx/simage/refine_uc_cr.py -> build/bdist.linux-x86_64/wheel/./rstbx/simage copying build/lib/rstbx/simage/explore_completeness.py -> build/bdist.linux-x86_64/wheel/./rstbx/simage copying build/lib/rstbx/simage/run_spotfinder.py -> build/bdist.linux-x86_64/wheel/./rstbx/simage copying build/lib/rstbx/simage/integrate_crude.py -> build/bdist.linux-x86_64/wheel/./rstbx/simage copying build/lib/rstbx/simage/create.py -> build/bdist.linux-x86_64/wheel/./rstbx/simage copying build/lib/rstbx/simage/__init__.py -> build/bdist.linux-x86_64/wheel/./rstbx/simage copying build/lib/rstbx/simage/solver.py -> build/bdist.linux-x86_64/wheel/./rstbx/simage copying build/lib/rstbx/simage/tst.py -> build/bdist.linux-x86_64/wheel/./rstbx/simage copying build/lib/rstbx/simage/wx_display.py -> build/bdist.linux-x86_64/wheel/./rstbx/simage creating build/bdist.linux-x86_64/wheel/rstbx/viewer copying build/lib/rstbx/viewer/pixels3d.py -> build/bdist.linux-x86_64/wheel/./rstbx/viewer copying build/lib/rstbx/viewer/integration.py -> build/bdist.linux-x86_64/wheel/./rstbx/viewer copying build/lib/rstbx/viewer/controls.py -> build/bdist.linux-x86_64/wheel/./rstbx/viewer copying build/lib/rstbx/viewer/spotfinder_wrap.py -> build/bdist.linux-x86_64/wheel/./rstbx/viewer copying build/lib/rstbx/viewer/calibration_frame.py -> build/bdist.linux-x86_64/wheel/./rstbx/viewer copying build/lib/rstbx/viewer/calibration.py -> build/bdist.linux-x86_64/wheel/./rstbx/viewer copying build/lib/rstbx/viewer/processing.py -> build/bdist.linux-x86_64/wheel/./rstbx/viewer copying build/lib/rstbx/viewer/display.py -> build/bdist.linux-x86_64/wheel/./rstbx/viewer copying build/lib/rstbx/viewer/results_base.py -> build/bdist.linux-x86_64/wheel/./rstbx/viewer copying build/lib/rstbx/viewer/indexing.py -> build/bdist.linux-x86_64/wheel/./rstbx/viewer copying build/lib/rstbx/viewer/__init__.py -> build/bdist.linux-x86_64/wheel/./rstbx/viewer copying build/lib/rstbx/viewer/drivers.py -> build/bdist.linux-x86_64/wheel/./rstbx/viewer copying build/lib/rstbx/viewer/tst.py -> build/bdist.linux-x86_64/wheel/./rstbx/viewer copying build/lib/rstbx/viewer/dataset.py -> build/bdist.linux-x86_64/wheel/./rstbx/viewer copying build/lib/rstbx/viewer/frame.py -> build/bdist.linux-x86_64/wheel/./rstbx/viewer copying build/lib/rstbx/viewer/spotfinder_frame.py -> build/bdist.linux-x86_64/wheel/./rstbx/viewer creating build/bdist.linux-x86_64/wheel/rstbx/detectors copying build/lib/rstbx/detectors/silicon.py -> build/bdist.linux-x86_64/wheel/./rstbx/detectors copying build/lib/rstbx/detectors/__init__.py -> build/bdist.linux-x86_64/wheel/./rstbx/detectors copying build/lib/rstbx/__init__.py -> build/bdist.linux-x86_64/wheel/./rstbx copying build/lib/rstbx/run_tests.py -> build/bdist.linux-x86_64/wheel/./rstbx creating build/bdist.linux-x86_64/wheel/rstbx/sublattice_support copying build/lib/rstbx/sublattice_support/tst_sublattice.py -> build/bdist.linux-x86_64/wheel/./rstbx/sublattice_support copying build/lib/rstbx/sublattice_support/__init__.py -> build/bdist.linux-x86_64/wheel/./rstbx/sublattice_support copying build/lib/rstbx/sublattice_support/change_basis.py -> build/bdist.linux-x86_64/wheel/./rstbx/sublattice_support creating build/bdist.linux-x86_64/wheel/rstbx/slip_viewer copying build/lib/rstbx/slip_viewer/ring_frame.py -> build/bdist.linux-x86_64/wheel/./rstbx/slip_viewer copying build/lib/rstbx/slip_viewer/tile_generation.py -> build/bdist.linux-x86_64/wheel/./rstbx/slip_viewer copying build/lib/rstbx/slip_viewer/uc_frame.py -> build/bdist.linux-x86_64/wheel/./rstbx/slip_viewer copying build/lib/rstbx/slip_viewer/slip_display.py -> build/bdist.linux-x86_64/wheel/./rstbx/slip_viewer copying build/lib/rstbx/slip_viewer/slip_viewer_image_factory.py -> build/bdist.linux-x86_64/wheel/./rstbx/slip_viewer copying build/lib/rstbx/slip_viewer/pyslip.py -> build/bdist.linux-x86_64/wheel/./rstbx/slip_viewer copying build/lib/rstbx/slip_viewer/calibration_frame.py -> build/bdist.linux-x86_64/wheel/./rstbx/slip_viewer copying build/lib/rstbx/slip_viewer/__init__.py -> build/bdist.linux-x86_64/wheel/./rstbx/slip_viewer copying build/lib/rstbx/slip_viewer/score_frame.py -> build/bdist.linux-x86_64/wheel/./rstbx/slip_viewer copying build/lib/rstbx/slip_viewer/example_frame_plugin_hidden.py -> build/bdist.linux-x86_64/wheel/./rstbx/slip_viewer copying build/lib/rstbx/slip_viewer/frame.py -> build/bdist.linux-x86_64/wheel/./rstbx/slip_viewer creating build/bdist.linux-x86_64/wheel/rstbx/indexing copying build/lib/rstbx/indexing/do_index.py -> build/bdist.linux-x86_64/wheel/./rstbx/indexing copying build/lib/rstbx/indexing/__init__.py -> build/bdist.linux-x86_64/wheel/./rstbx/indexing copying build/lib/rstbx/indexing/tst_auto_monoscan.py -> build/bdist.linux-x86_64/wheel/./rstbx/indexing copying build/lib/rstbx/indexing/tst_dataset1.py -> build/bdist.linux-x86_64/wheel/./rstbx/indexing creating build/bdist.linux-x86_64/wheel/rstbx/indexing_api copying build/lib/rstbx/indexing_api/test_dps.py -> build/bdist.linux-x86_64/wheel/./rstbx/indexing_api copying build/lib/rstbx/indexing_api/lattice.py -> build/bdist.linux-x86_64/wheel/./rstbx/indexing_api copying build/lib/rstbx/indexing_api/tools.py -> build/bdist.linux-x86_64/wheel/./rstbx/indexing_api copying build/lib/rstbx/indexing_api/force_cell.py -> build/bdist.linux-x86_64/wheel/./rstbx/indexing_api copying build/lib/rstbx/indexing_api/basis_choice.py -> build/bdist.linux-x86_64/wheel/./rstbx/indexing_api copying build/lib/rstbx/indexing_api/nearest_neighbor.py -> build/bdist.linux-x86_64/wheel/./rstbx/indexing_api copying build/lib/rstbx/indexing_api/__init__.py -> build/bdist.linux-x86_64/wheel/./rstbx/indexing_api copying build/lib/rstbx/indexing_api/sampling.py -> build/bdist.linux-x86_64/wheel/./rstbx/indexing_api copying build/lib/rstbx/indexing_api/outlier_procedure.py -> build/bdist.linux-x86_64/wheel/./rstbx/indexing_api copying build/lib/rstbx/indexing_api/outlier_detection.py -> build/bdist.linux-x86_64/wheel/./rstbx/indexing_api copying build/lib/rstbx/utils.py -> build/bdist.linux-x86_64/wheel/./rstbx creating build/bdist.linux-x86_64/wheel/boost copying build/lib/boost/tuple.py -> build/bdist.linux-x86_64/wheel/./boost copying build/lib/boost/optional.py -> build/bdist.linux-x86_64/wheel/./boost copying build/lib/boost/std_pair.py -> build/bdist.linux-x86_64/wheel/./boost copying build/lib/boost/python.py -> build/bdist.linux-x86_64/wheel/./boost copying build/lib/boost/__init__.py -> build/bdist.linux-x86_64/wheel/./boost copying build/lib/boost/rational.py -> build/bdist.linux-x86_64/wheel/./boost creating build/bdist.linux-x86_64/wheel/spotfinder creating build/bdist.linux-x86_64/wheel/spotfinder/command_line copying build/lib/spotfinder/command_line/image_viewer.py -> build/bdist.linux-x86_64/wheel/./spotfinder/command_line copying build/lib/spotfinder/command_line/thin_client.py -> build/bdist.linux-x86_64/wheel/./spotfinder/command_line copying build/lib/spotfinder/command_line/signal_strength.py -> build/bdist.linux-x86_64/wheel/./spotfinder/command_line copying build/lib/spotfinder/command_line/sweep_strength.py -> build/bdist.linux-x86_64/wheel/./spotfinder/command_line copying build/lib/spotfinder/command_line/__init__.py -> build/bdist.linux-x86_64/wheel/./spotfinder/command_line copying build/lib/spotfinder/command_line/find_active_area.py -> build/bdist.linux-x86_64/wheel/./spotfinder/command_line copying build/lib/spotfinder/command_line/mp_spotfinder_server_read_file.py -> build/bdist.linux-x86_64/wheel/./spotfinder/command_line creating build/bdist.linux-x86_64/wheel/spotfinder/math_support copying build/lib/spotfinder/math_support/sphere_formulae.py -> build/bdist.linux-x86_64/wheel/./spotfinder/math_support copying build/lib/spotfinder/math_support/__init__.py -> build/bdist.linux-x86_64/wheel/./spotfinder/math_support creating build/bdist.linux-x86_64/wheel/spotfinder/core_toolbox copying build/lib/spotfinder/core_toolbox/close_spots_detail.py -> build/bdist.linux-x86_64/wheel/./spotfinder/core_toolbox copying build/lib/spotfinder/core_toolbox/__init__.py -> build/bdist.linux-x86_64/wheel/./spotfinder/core_toolbox creating build/bdist.linux-x86_64/wheel/spotfinder/diffraction copying build/lib/spotfinder/diffraction/imagefiles.py -> build/bdist.linux-x86_64/wheel/./spotfinder/diffraction copying build/lib/spotfinder/diffraction/__init__.py -> build/bdist.linux-x86_64/wheel/./spotfinder/diffraction copying build/lib/spotfinder/diffraction/geometry.py -> build/bdist.linux-x86_64/wheel/./spotfinder/diffraction creating build/bdist.linux-x86_64/wheel/spotfinder/applications copying build/lib/spotfinder/applications/image_viewer.py -> build/bdist.linux-x86_64/wheel/./spotfinder/applications copying build/lib/spotfinder/applications/signal_strength.py -> build/bdist.linux-x86_64/wheel/./spotfinder/applications creating build/bdist.linux-x86_64/wheel/spotfinder/applications/xfel copying build/lib/spotfinder/applications/xfel/correction_vector_plot.py -> build/bdist.linux-x86_64/wheel/./spotfinder/applications/xfel copying build/lib/spotfinder/applications/xfel/cxi_phil.py -> build/bdist.linux-x86_64/wheel/./spotfinder/applications/xfel copying build/lib/spotfinder/applications/xfel/__init__.py -> build/bdist.linux-x86_64/wheel/./spotfinder/applications/xfel copying build/lib/spotfinder/applications/xfel/cxi_run3.py -> build/bdist.linux-x86_64/wheel/./spotfinder/applications/xfel creating build/bdist.linux-x86_64/wheel/spotfinder/applications/heuristic_tbx copying build/lib/spotfinder/applications/heuristic_tbx/__init__.py -> build/bdist.linux-x86_64/wheel/./spotfinder/applications/heuristic_tbx copying build/lib/spotfinder/applications/heuristic_tbx/ice_nztt.py -> build/bdist.linux-x86_64/wheel/./spotfinder/applications/heuristic_tbx copying build/lib/spotfinder/applications/heuristic_tbx/spotreporter.py -> build/bdist.linux-x86_64/wheel/./spotfinder/applications/heuristic_tbx copying build/lib/spotfinder/applications/heuristic_tbx/method2_resolution.py -> build/bdist.linux-x86_64/wheel/./spotfinder/applications/heuristic_tbx copying build/lib/spotfinder/applications/heuristic_tbx/ice2.py -> build/bdist.linux-x86_64/wheel/./spotfinder/applications/heuristic_tbx copying build/lib/spotfinder/applications/stats_distl.py -> build/bdist.linux-x86_64/wheel/./spotfinder/applications copying build/lib/spotfinder/applications/wrappers.py -> build/bdist.linux-x86_64/wheel/./spotfinder/applications copying build/lib/spotfinder/applications/practical_heuristics.py -> build/bdist.linux-x86_64/wheel/./spotfinder/applications copying build/lib/spotfinder/applications/__init__.py -> build/bdist.linux-x86_64/wheel/./spotfinder/applications creating build/bdist.linux-x86_64/wheel/spotfinder/array_family copying build/lib/spotfinder/array_family/flex.py -> build/bdist.linux-x86_64/wheel/./spotfinder/array_family copying build/lib/spotfinder/array_family/__init__.py -> build/bdist.linux-x86_64/wheel/./spotfinder/array_family creating build/bdist.linux-x86_64/wheel/spotfinder/dxtbx_toolbox copying build/lib/spotfinder/dxtbx_toolbox/practical_heuristics.py -> build/bdist.linux-x86_64/wheel/./spotfinder/dxtbx_toolbox copying build/lib/spotfinder/dxtbx_toolbox/__init__.py -> build/bdist.linux-x86_64/wheel/./spotfinder/dxtbx_toolbox copying build/lib/spotfinder/__init__.py -> build/bdist.linux-x86_64/wheel/./spotfinder copying build/lib/spotfinder/run_tests.py -> build/bdist.linux-x86_64/wheel/./spotfinder creating build/bdist.linux-x86_64/wheel/spotfinder/servers copying build/lib/spotfinder/servers/apache.py -> build/bdist.linux-x86_64/wheel/./spotfinder/servers copying build/lib/spotfinder/servers/apache_dials.py -> build/bdist.linux-x86_64/wheel/./spotfinder/servers copying build/lib/spotfinder/servers/apache_utils.py -> build/bdist.linux-x86_64/wheel/./spotfinder/servers copying build/lib/spotfinder/servers/apache_bcsb.py -> build/bdist.linux-x86_64/wheel/./spotfinder/servers copying build/lib/spotfinder/servers/thin_client.py -> build/bdist.linux-x86_64/wheel/./spotfinder/servers copying build/lib/spotfinder/servers/spotfinder_server_read_file.py -> build/bdist.linux-x86_64/wheel/./spotfinder/servers copying build/lib/spotfinder/servers/spotfinder_server_client_push.py -> build/bdist.linux-x86_64/wheel/./spotfinder/servers copying build/lib/spotfinder/servers/general_client_example.py -> build/bdist.linux-x86_64/wheel/./spotfinder/servers copying build/lib/spotfinder/servers/bcsb_client_example.py -> build/bdist.linux-x86_64/wheel/./spotfinder/servers copying build/lib/spotfinder/servers/specific_client_example.py -> build/bdist.linux-x86_64/wheel/./spotfinder/servers copying build/lib/spotfinder/servers/multipart_encoder.py -> build/bdist.linux-x86_64/wheel/./spotfinder/servers copying build/lib/spotfinder/servers/pilatus_client.py -> build/bdist.linux-x86_64/wheel/./spotfinder/servers copying build/lib/spotfinder/servers/adsc_client.py -> build/bdist.linux-x86_64/wheel/./spotfinder/servers copying build/lib/spotfinder/servers/__init__.py -> build/bdist.linux-x86_64/wheel/./spotfinder/servers copying build/lib/spotfinder/servers/mp_spotfinder_server_read_file.py -> build/bdist.linux-x86_64/wheel/./spotfinder/servers copying build/lib/spotfinder/servers/mp_spotfinder_server_is_alive.py -> build/bdist.linux-x86_64/wheel/./spotfinder/servers copying build/lib/spotfinder/exception.py -> build/bdist.linux-x86_64/wheel/./spotfinder creating build/bdist.linux-x86_64/wheel/iotbx creating build/bdist.linux-x86_64/wheel/iotbx/command_line copying build/lib/iotbx/command_line/shelx.as_xray_structure.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/cif.as_miller_arrays.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/pdb_remediator.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/simple_map_coefficients.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/split_data_cif.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/sort_atoms.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/french_wilson.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/build_phil_cache.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/phil.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/pdb_as_cif.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/show_distances.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/detector_image_as_png.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/explore_metric_symmetry.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/pdb.superpose_centers_of_mass.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/flip_symmetric_amino_acids.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/unique_with_biomt.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/r_free_flags_completion_simple.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/pdb_cif_conversion.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/pdb.link_as_geometry_restraints_edits.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/reflection_file_converter.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/blast_pdb.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/get_pubmed_citation.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/lattice_symmetry.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/cns.sdb_reader.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/cns.transfer_crystal_symmetry.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/reflection_statistics.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/pdb_labels_comparison.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/pdb_as_fasta.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/pdb_labels_diff.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/cif.as_xray_structure.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/reindex.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/patterson_map.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/cif_as_pdb.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/pdb_get_citation.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/r_free_flags_accumulation.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/reflection_file_reader.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/pdb.print_sequence.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/dano_as_amplitudes.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/poscar_as_xray_structure.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/cns_as_mtz.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/pdb_add_conformations.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/pdb.box_around_molecule.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/dtrek.to_cns.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/mtz_as_cif.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/pdb.join_fragment_files.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/show_systematic_absences.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/mtz.dump.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/pdb.superpose_atoms_by_name.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/r_free_flags_as_cns.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/__init__.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/mtrix_reconstruction.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/effective_resolution.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/reflection_file_editor.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/pdb.b_factor_stats.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/cif.validate.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/pdb.as_xray_structure.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/biomt_reconstruction.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/cns.reflection_reader.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/cbf_read.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/pdb.insert_scale_records.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/pdb_show_connectivity.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/shelx.dump_as_python.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/emma.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/pdb_split_models.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/file_reader.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/merging_statistics.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/export_scalepack_unmerged.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/csv_as_mtz.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/pdb.hierarchy.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/crystal_symmetry_from_any.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/xplor.map.show_summary.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/shelx.as_cif.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/distance_least_squares.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line copying build/lib/iotbx/command_line/symmetry_search.py -> build/bdist.linux-x86_64/wheel/./iotbx/command_line creating build/bdist.linux-x86_64/wheel/iotbx/examples copying build/lib/iotbx/examples/pdb_hierarchy.py -> build/bdist.linux-x86_64/wheel/./iotbx/examples copying build/lib/iotbx/examples/mtz_free_flipper.py -> build/bdist.linux-x86_64/wheel/./iotbx/examples copying build/lib/iotbx/examples/pdb_symmetry_copies.py -> build/bdist.linux-x86_64/wheel/./iotbx/examples copying build/lib/iotbx/examples/recalculate_phenix_refine_r_factors.py -> build/bdist.linux-x86_64/wheel/./iotbx/examples creating build/bdist.linux-x86_64/wheel/iotbx/examples/pdb_truncate_to_ala copying build/lib/iotbx/examples/pdb_truncate_to_ala/v0_getting_started.py -> build/bdist.linux-x86_64/wheel/./iotbx/examples/pdb_truncate_to_ala copying build/lib/iotbx/examples/pdb_truncate_to_ala/v3_better.py -> build/bdist.linux-x86_64/wheel/./iotbx/examples/pdb_truncate_to_ala copying build/lib/iotbx/examples/pdb_truncate_to_ala/v1_loop_over_atoms.py -> build/bdist.linux-x86_64/wheel/./iotbx/examples/pdb_truncate_to_ala copying build/lib/iotbx/examples/pdb_truncate_to_ala/v4_with_bells_and_whistles.py -> build/bdist.linux-x86_64/wheel/./iotbx/examples/pdb_truncate_to_ala copying build/lib/iotbx/examples/pdb_truncate_to_ala/v2_simple.py -> build/bdist.linux-x86_64/wheel/./iotbx/examples/pdb_truncate_to_ala copying build/lib/iotbx/examples/pdb_truncate_to_ala/__init__.py -> build/bdist.linux-x86_64/wheel/./iotbx/examples/pdb_truncate_to_ala copying build/lib/iotbx/examples/pdb_truncate_to_ala/tst.py -> build/bdist.linux-x86_64/wheel/./iotbx/examples/pdb_truncate_to_ala copying build/lib/iotbx/examples/shelx_latt_sym_to_space_group_symbol.py -> build/bdist.linux-x86_64/wheel/./iotbx/examples copying build/lib/iotbx/examples/tst_mtz_free_flipper.py -> build/bdist.linux-x86_64/wheel/./iotbx/examples copying build/lib/iotbx/examples/libtbx_phil_examples.py -> build/bdist.linux-x86_64/wheel/./iotbx/examples copying build/lib/iotbx/examples/direct_methods_light.py -> build/bdist.linux-x86_64/wheel/./iotbx/examples copying build/lib/iotbx/examples/pdb_tardy_conf_sampling_simple.py -> build/bdist.linux-x86_64/wheel/./iotbx/examples copying build/lib/iotbx/examples/pdb_to_map_simple.py -> build/bdist.linux-x86_64/wheel/./iotbx/examples copying build/lib/iotbx/examples/pdb_shake.py -> build/bdist.linux-x86_64/wheel/./iotbx/examples copying build/lib/iotbx/examples/pdbx_mmcif_tutorial.py -> build/bdist.linux-x86_64/wheel/./iotbx/examples copying build/lib/iotbx/examples/pdb_split_chains.py -> build/bdist.linux-x86_64/wheel/./iotbx/examples copying build/lib/iotbx/examples/__init__.py -> build/bdist.linux-x86_64/wheel/./iotbx/examples copying build/lib/iotbx/examples/prepare_model_for_rsr.py -> build/bdist.linux-x86_64/wheel/./iotbx/examples copying build/lib/iotbx/examples/mtz_convert_free_to_work.py -> build/bdist.linux-x86_64/wheel/./iotbx/examples copying build/lib/iotbx/poscar.py -> build/bdist.linux-x86_64/wheel/./iotbx copying build/lib/iotbx/cif_mtz_data_labels.py -> build/bdist.linux-x86_64/wheel/./iotbx copying build/lib/iotbx/map_tools.py -> build/bdist.linux-x86_64/wheel/./iotbx creating build/bdist.linux-x86_64/wheel/iotbx/shelx copying build/lib/iotbx/shelx/parsers.py -> build/bdist.linux-x86_64/wheel/./iotbx/shelx copying build/lib/iotbx/shelx/tst_writer.py -> build/bdist.linux-x86_64/wheel/./iotbx/shelx copying build/lib/iotbx/shelx/tst_lex_parse_build.py -> build/bdist.linux-x86_64/wheel/./iotbx/shelx copying build/lib/iotbx/shelx/lexer.py -> build/bdist.linux-x86_64/wheel/./iotbx/shelx copying build/lib/iotbx/shelx/hklf.py -> build/bdist.linux-x86_64/wheel/./iotbx/shelx copying build/lib/iotbx/shelx/tst_fvar_encoding.py -> build/bdist.linux-x86_64/wheel/./iotbx/shelx copying build/lib/iotbx/shelx/tokens.py -> build/bdist.linux-x86_64/wheel/./iotbx/shelx copying build/lib/iotbx/shelx/fvar_encoding.py -> build/bdist.linux-x86_64/wheel/./iotbx/shelx copying build/lib/iotbx/shelx/writer.py -> build/bdist.linux-x86_64/wheel/./iotbx/shelx copying build/lib/iotbx/shelx/tst_hklf.py -> build/bdist.linux-x86_64/wheel/./iotbx/shelx copying build/lib/iotbx/shelx/__init__.py -> build/bdist.linux-x86_64/wheel/./iotbx/shelx copying build/lib/iotbx/shelx/crystal_symmetry_from_ins.py -> build/bdist.linux-x86_64/wheel/./iotbx/shelx copying build/lib/iotbx/shelx/write_ins.py -> build/bdist.linux-x86_64/wheel/./iotbx/shelx copying build/lib/iotbx/shelx/errors.py -> build/bdist.linux-x86_64/wheel/./iotbx/shelx copying build/lib/iotbx/shelx/fcf.py -> build/bdist.linux-x86_64/wheel/./iotbx/shelx copying build/lib/iotbx/data_plots.py -> build/bdist.linux-x86_64/wheel/./iotbx copying build/lib/iotbx/phil.py -> build/bdist.linux-x86_64/wheel/./iotbx creating build/bdist.linux-x86_64/wheel/iotbx/dtrek copying build/lib/iotbx/dtrek/reflnlist_reader.py -> build/bdist.linux-x86_64/wheel/./iotbx/dtrek copying build/lib/iotbx/dtrek/__init__.py -> build/bdist.linux-x86_64/wheel/./iotbx/dtrek copying build/lib/iotbx/dtrek/crystal_symmetry_from_ref.py -> build/bdist.linux-x86_64/wheel/./iotbx/dtrek copying build/lib/iotbx/dtrek/dtrek_symmetry_dict.py -> build/bdist.linux-x86_64/wheel/./iotbx/dtrek creating build/bdist.linux-x86_64/wheel/iotbx/fullprof copying build/lib/iotbx/fullprof/read_pcr.py -> build/bdist.linux-x86_64/wheel/./iotbx/fullprof copying build/lib/iotbx/fullprof/write_pcr.py -> build/bdist.linux-x86_64/wheel/./iotbx/fullprof copying build/lib/iotbx/fullprof/__init__.py -> build/bdist.linux-x86_64/wheel/./iotbx/fullprof creating build/bdist.linux-x86_64/wheel/iotbx/xds copying build/lib/iotbx/xds/xparm.py -> build/bdist.linux-x86_64/wheel/./iotbx/xds copying build/lib/iotbx/xds/xds_inp.py -> build/bdist.linux-x86_64/wheel/./iotbx/xds copying build/lib/iotbx/xds/gain_cbf.py -> build/bdist.linux-x86_64/wheel/./iotbx/xds copying build/lib/iotbx/xds/integrate_hkl.py -> build/bdist.linux-x86_64/wheel/./iotbx/xds copying build/lib/iotbx/xds/spot_xds.py -> build/bdist.linux-x86_64/wheel/./iotbx/xds copying build/lib/iotbx/xds/blank_cbf.py -> build/bdist.linux-x86_64/wheel/./iotbx/xds copying build/lib/iotbx/xds/__init__.py -> build/bdist.linux-x86_64/wheel/./iotbx/xds copying build/lib/iotbx/xds/geometry.py -> build/bdist.linux-x86_64/wheel/./iotbx/xds copying build/lib/iotbx/xds/read_ascii.py -> build/bdist.linux-x86_64/wheel/./iotbx/xds copying build/lib/iotbx/xds/correction.py -> build/bdist.linux-x86_64/wheel/./iotbx/xds copying build/lib/iotbx/xds/xds_cbf.py -> build/bdist.linux-x86_64/wheel/./iotbx/xds copying build/lib/iotbx/xds/crystal_symmetry_from_hkl.py -> build/bdist.linux-x86_64/wheel/./iotbx/xds copying build/lib/iotbx/pymol.py -> build/bdist.linux-x86_64/wheel/./iotbx creating build/bdist.linux-x86_64/wheel/iotbx/ccp4_map copying build/lib/iotbx/ccp4_map/__init__.py -> build/bdist.linux-x86_64/wheel/./iotbx/ccp4_map copying build/lib/iotbx/ccp4_map/tst.py -> build/bdist.linux-x86_64/wheel/./iotbx/ccp4_map copying build/lib/iotbx/ccp4_map/crystal_symmetry_from_ccp4_map.py -> build/bdist.linux-x86_64/wheel/./iotbx/ccp4_map copying build/lib/iotbx/logfiles.py -> build/bdist.linux-x86_64/wheel/./iotbx creating build/bdist.linux-x86_64/wheel/iotbx/xplor copying build/lib/iotbx/xplor/tst_xplormap.py -> build/bdist.linux-x86_64/wheel/./iotbx/xplor copying build/lib/iotbx/xplor/crystal_symmetry_from_map.py -> build/bdist.linux-x86_64/wheel/./iotbx/xplor copying build/lib/iotbx/xplor/map.py -> build/bdist.linux-x86_64/wheel/./iotbx/xplor copying build/lib/iotbx/xplor/__init__.py -> build/bdist.linux-x86_64/wheel/./iotbx/xplor copying build/lib/iotbx/xplor/ext.py -> build/bdist.linux-x86_64/wheel/./iotbx/xplor copying build/lib/iotbx/reflection_file_converter.py -> build/bdist.linux-x86_64/wheel/./iotbx copying build/lib/iotbx/table_one.py -> build/bdist.linux-x86_64/wheel/./iotbx copying build/lib/iotbx/simple_parser.py -> build/bdist.linux-x86_64/wheel/./iotbx copying build/lib/iotbx/map_model_manager.py -> build/bdist.linux-x86_64/wheel/./iotbx copying build/lib/iotbx/csv_utils.py -> build/bdist.linux-x86_64/wheel/./iotbx copying build/lib/iotbx/reflection_file_utils.py -> build/bdist.linux-x86_64/wheel/./iotbx copying build/lib/iotbx/phases.py -> build/bdist.linux-x86_64/wheel/./iotbx copying build/lib/iotbx/builders.py -> build/bdist.linux-x86_64/wheel/./iotbx creating build/bdist.linux-x86_64/wheel/iotbx/regression copying build/lib/iotbx/regression/tst_reflection_statistics.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_map_model_manager_call_consistency.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_map_model_manager_4.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_hierarchy_forward_compatible_pdb.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_map_manager_wrapping.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_pdb_link_records.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_generate_n_char_string.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_add_conformations.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_hierarchy_long_resname_2.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_wildcard.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_group_rounding.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_atom_selections_10k.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_cif_1.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_map_model_manager_2.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_simple_parser.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_file_reader.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_reflection_file_editor.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_show_systematic_absences.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_split_models.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_mmcif_input.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_hierarchy_long_resname_4.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_cli_parser.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_map_model_manager_model_sharpening_5_cif.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_mrc_io.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_hierarchy_long_resname_3.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_patterson.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_mmcif_segids.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_hierarchy_copy_select.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_hierarchy_long_resname_1.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_map_model_manager_half_map_sharpening_6.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_simple_map_coefficients.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_hierarchy_long_chain_ids_1.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_pdb_as_cif.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_map_manager.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_pdbx_mmcif_tutorial.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_pdb_cif_cells.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_mtz_as_cif.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_fetch.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_hierarchy_pdb_v3.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_map_model_manager_3.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_map_model_manager_local_resolution_10.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_phil.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_map_model_manager_9_remove_origin_shift_and_unit_cell_crystal_symmetry.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_mmcif_multimodel.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_reflection_file_reader.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_bioinformatics.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_hierarchy_occupancies_rounding.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_box_around_molecule.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_symmetry.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_export_scalepack_unmerged.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_miller_sort_asu.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_all_chain_ids.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_split_data_cif.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_sort_atoms.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/__init__.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_map_manager_2.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_examples.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_reflection_file_utils.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_map_model_manager_cif.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_map_model_manager.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_merging_statistics.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_map_model_manager_model_sharpening_5.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_pdb_as_fasta.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_pdb_cif_inputs.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_map_model_manager_external_sharpening_7.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_poscar.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_hierarchy_merge_atoms_at_end_to_residues.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_csv_utils.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_reindex.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_data_manager.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression creating build/bdist.linux-x86_64/wheel/iotbx/regression/ncs copying build/lib/iotbx/regression/ncs/tst_ncs_user_selections.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression/ncs copying build/lib/iotbx/regression/ncs/tst_ncs_groups_preprocessing.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression/ncs copying build/lib/iotbx/regression/ncs/tst_ncs_without_validation.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression/ncs copying build/lib/iotbx/regression/ncs/tst_ncs_search_shortcut_1.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression/ncs copying build/lib/iotbx/regression/ncs/tst_mtrix_biomt_cmdl.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression/ncs copying build/lib/iotbx/regression/ncs/__init__.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression/ncs copying build/lib/iotbx/regression/ncs/tst_ncs_input.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression/ncs copying build/lib/iotbx/regression/ncs/tst_ncs.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression/ncs copying build/lib/iotbx/regression/ncs/tst_ncs_reordered_chains.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression/ncs copying build/lib/iotbx/regression/ncs/tst_mmcif_biomt_reduction_output.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression/ncs copying build/lib/iotbx/regression/ncs/tst_ncs_search_broken_chain.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression/ncs copying build/lib/iotbx/regression/ncs/tst_ncs_search_ligs.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression/ncs copying build/lib/iotbx/regression/tst_selected_hierarchy_flip.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_hierarchy_altlocs.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_map_model_manager_9_remove_origin_shift_and_unit_cell_crystal_symmetry_cif.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_restraints_merge.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_xray_scale.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_mmcif_to_from_hierarchy.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_hierarchy_id_str.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_map_model_manager_tls_from_map_8.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_data_plots.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_phases.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_lattice_symmetry.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_crystal_symmetry_from_any.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/utils.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_map_tools.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_extract_xtal_data.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/regression/tst_cif_as_pdb_1atom.py -> build/bdist.linux-x86_64/wheel/./iotbx/regression copying build/lib/iotbx/builders_depending_on_smtbx.py -> build/bdist.linux-x86_64/wheel/./iotbx copying build/lib/iotbx/reflection_file_reader.py -> build/bdist.linux-x86_64/wheel/./iotbx creating build/bdist.linux-x86_64/wheel/iotbx/data_manager copying build/lib/iotbx/data_manager/model.py -> build/bdist.linux-x86_64/wheel/./iotbx/data_manager copying build/lib/iotbx/data_manager/phil.py -> build/bdist.linux-x86_64/wheel/./iotbx/data_manager copying build/lib/iotbx/data_manager/ncs_spec.py -> build/bdist.linux-x86_64/wheel/./iotbx/data_manager copying build/lib/iotbx/data_manager/sequence.py -> build/bdist.linux-x86_64/wheel/./iotbx/data_manager copying build/lib/iotbx/data_manager/common.py -> build/bdist.linux-x86_64/wheel/./iotbx/data_manager copying build/lib/iotbx/data_manager/miller_array.py -> build/bdist.linux-x86_64/wheel/./iotbx/data_manager copying build/lib/iotbx/data_manager/real_map.py -> build/bdist.linux-x86_64/wheel/./iotbx/data_manager copying build/lib/iotbx/data_manager/__init__.py -> build/bdist.linux-x86_64/wheel/./iotbx/data_manager copying build/lib/iotbx/data_manager/restraint.py -> build/bdist.linux-x86_64/wheel/./iotbx/data_manager copying build/lib/iotbx/data_manager/map_coefficients.py -> build/bdist.linux-x86_64/wheel/./iotbx/data_manager creating build/bdist.linux-x86_64/wheel/iotbx/PrettyPrint copying build/lib/iotbx/PrettyPrint/tables.py -> build/bdist.linux-x86_64/wheel/./iotbx/PrettyPrint copying build/lib/iotbx/PrettyPrint/__init__.py -> build/bdist.linux-x86_64/wheel/./iotbx/PrettyPrint creating build/bdist.linux-x86_64/wheel/iotbx/dsn6 copying build/lib/iotbx/dsn6/__init__.py -> build/bdist.linux-x86_64/wheel/./iotbx/dsn6 copying build/lib/iotbx/dsn6/tst.py -> build/bdist.linux-x86_64/wheel/./iotbx/dsn6 creating build/bdist.linux-x86_64/wheel/iotbx/cif copying build/lib/iotbx/cif/citations.py -> build/bdist.linux-x86_64/wheel/./iotbx/cif copying build/lib/iotbx/cif/model.py -> build/bdist.linux-x86_64/wheel/./iotbx/cif copying build/lib/iotbx/cif/builders.py -> build/bdist.linux-x86_64/wheel/./iotbx/cif copying build/lib/iotbx/cif/validation.py -> build/bdist.linux-x86_64/wheel/./iotbx/cif copying build/lib/iotbx/cif/restraint_file_merge.py -> build/bdist.linux-x86_64/wheel/./iotbx/cif copying build/lib/iotbx/cif/__init__.py -> build/bdist.linux-x86_64/wheel/./iotbx/cif copying build/lib/iotbx/cif/geometry.py -> build/bdist.linux-x86_64/wheel/./iotbx/cif copying build/lib/iotbx/cif/errors.py -> build/bdist.linux-x86_64/wheel/./iotbx/cif copying build/lib/iotbx/cif/crystal_symmetry_from_cif.py -> build/bdist.linux-x86_64/wheel/./iotbx/cif copying build/lib/iotbx/cif/restraints.py -> build/bdist.linux-x86_64/wheel/./iotbx/cif copying build/lib/iotbx/cif/cod_tools.py -> build/bdist.linux-x86_64/wheel/./iotbx/cif creating build/bdist.linux-x86_64/wheel/iotbx/solve copying build/lib/iotbx/solve/crystal_symmetry_from_inp.py -> build/bdist.linux-x86_64/wheel/./iotbx/solve copying build/lib/iotbx/solve/fpfm_reader.py -> build/bdist.linux-x86_64/wheel/./iotbx/solve copying build/lib/iotbx/solve/__init__.py -> build/bdist.linux-x86_64/wheel/./iotbx/solve creating build/bdist.linux-x86_64/wheel/iotbx/mtz copying build/lib/iotbx/mtz/tst_miller_dict.py -> build/bdist.linux-x86_64/wheel/./iotbx/mtz copying build/lib/iotbx/mtz/tst_unmerged.py -> build/bdist.linux-x86_64/wheel/./iotbx/mtz copying build/lib/iotbx/mtz/tst_extract_from_symmetry_lib.py -> build/bdist.linux-x86_64/wheel/./iotbx/mtz copying build/lib/iotbx/mtz/tst_dano.py -> build/bdist.linux-x86_64/wheel/./iotbx/mtz copying build/lib/iotbx/mtz/extract_from_symmetry_lib.py -> build/bdist.linux-x86_64/wheel/./iotbx/mtz copying build/lib/iotbx/mtz/crystal_symmetry_from_mtz.py -> build/bdist.linux-x86_64/wheel/./iotbx/mtz copying build/lib/iotbx/mtz/__init__.py -> build/bdist.linux-x86_64/wheel/./iotbx/mtz copying build/lib/iotbx/mtz/tst.py -> build/bdist.linux-x86_64/wheel/./iotbx/mtz copying build/lib/iotbx/mtz/tst_ext.py -> build/bdist.linux-x86_64/wheel/./iotbx/mtz copying build/lib/iotbx/extract_xtal_data.py -> build/bdist.linux-x86_64/wheel/./iotbx creating build/bdist.linux-x86_64/wheel/iotbx/bioinformatics copying build/lib/iotbx/bioinformatics/pdb_info.py -> build/bdist.linux-x86_64/wheel/./iotbx/bioinformatics copying build/lib/iotbx/bioinformatics/pubmed.py -> build/bdist.linux-x86_64/wheel/./iotbx/bioinformatics copying build/lib/iotbx/bioinformatics/local_blast.py -> build/bdist.linux-x86_64/wheel/./iotbx/bioinformatics copying build/lib/iotbx/bioinformatics/xmlbuild.py -> build/bdist.linux-x86_64/wheel/./iotbx/bioinformatics copying build/lib/iotbx/bioinformatics/ncbi_blast_xml.py -> build/bdist.linux-x86_64/wheel/./iotbx/bioinformatics copying build/lib/iotbx/bioinformatics/ebi_wu_blast_xml.py -> build/bdist.linux-x86_64/wheel/./iotbx/bioinformatics copying build/lib/iotbx/bioinformatics/homologues.py -> build/bdist.linux-x86_64/wheel/./iotbx/bioinformatics copying build/lib/iotbx/bioinformatics/__init__.py -> build/bdist.linux-x86_64/wheel/./iotbx/bioinformatics copying build/lib/iotbx/bioinformatics/alignment_as_hsearch.py -> build/bdist.linux-x86_64/wheel/./iotbx/bioinformatics copying build/lib/iotbx/bioinformatics/structure.py -> build/bdist.linux-x86_64/wheel/./iotbx/bioinformatics copying build/lib/iotbx/wildcard.py -> build/bdist.linux-x86_64/wheel/./iotbx copying build/lib/iotbx/option_parser.py -> build/bdist.linux-x86_64/wheel/./iotbx creating build/bdist.linux-x86_64/wheel/iotbx/scalepack copying build/lib/iotbx/scalepack/tst_merge.py -> build/bdist.linux-x86_64/wheel/./iotbx/scalepack copying build/lib/iotbx/scalepack/tst_no_merge_original_index.py -> build/bdist.linux-x86_64/wheel/./iotbx/scalepack copying build/lib/iotbx/scalepack/merge.py -> build/bdist.linux-x86_64/wheel/./iotbx/scalepack copying build/lib/iotbx/scalepack/no_merge_original_index.py -> build/bdist.linux-x86_64/wheel/./iotbx/scalepack copying build/lib/iotbx/scalepack/space_group_dictionary.py -> build/bdist.linux-x86_64/wheel/./iotbx/scalepack copying build/lib/iotbx/scalepack/__init__.py -> build/bdist.linux-x86_64/wheel/./iotbx/scalepack copying build/lib/iotbx/scalepack/crystal_symmetry_from_hkl.py -> build/bdist.linux-x86_64/wheel/./iotbx/scalepack copying build/lib/iotbx/symmetry.py -> build/bdist.linux-x86_64/wheel/./iotbx creating build/bdist.linux-x86_64/wheel/iotbx/detectors copying build/lib/iotbx/detectors/tst_adsc.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors copying build/lib/iotbx/detectors/macscience.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors copying build/lib/iotbx/detectors/dtrek.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors copying build/lib/iotbx/detectors/tst_py_cbf.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors copying build/lib/iotbx/detectors/tst_cbf_comp_read_meth.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors copying build/lib/iotbx/detectors/cbf.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors copying build/lib/iotbx/detectors/test_mar.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors copying build/lib/iotbx/detectors/detectorbase.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors copying build/lib/iotbx/detectors/adsc.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors copying build/lib/iotbx/detectors/noir.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors copying build/lib/iotbx/detectors/edf.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors copying build/lib/iotbx/detectors/pilatus_slice.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors copying build/lib/iotbx/detectors/raxisbase.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors copying build/lib/iotbx/detectors/adsc_module.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors copying build/lib/iotbx/detectors/mar.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors copying build/lib/iotbx/detectors/adsc_minicbf.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors creating build/bdist.linux-x86_64/wheel/iotbx/detectors/context copying build/lib/iotbx/detectors/context/endstation_max_iv_trial.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors/context copying build/lib/iotbx/detectors/context/spot_xy_convention.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors/context copying build/lib/iotbx/detectors/context/config_detector.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors/context copying build/lib/iotbx/detectors/context/endstation.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors/context copying build/lib/iotbx/detectors/context/camera_convention.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors/context copying build/lib/iotbx/detectors/context/__init__.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors/context copying build/lib/iotbx/detectors/tst_detectors.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors copying build/lib/iotbx/detectors/generic_detector.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors copying build/lib/iotbx/detectors/tst_debug_write.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors copying build/lib/iotbx/detectors/eiger.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors copying build/lib/iotbx/detectors/saturn.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors copying build/lib/iotbx/detectors/beam_center_convention.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors copying build/lib/iotbx/detectors/pilatus_minicbf.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors copying build/lib/iotbx/detectors/eiger_minicbf.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors copying build/lib/iotbx/detectors/__init__.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors copying build/lib/iotbx/detectors/hamamatsu.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors creating build/bdist.linux-x86_64/wheel/iotbx/detectors/util copying build/lib/iotbx/detectors/util/__init__.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors/util copying build/lib/iotbx/detectors/util/filters.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors/util copying build/lib/iotbx/detectors/url_support.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors copying build/lib/iotbx/detectors/test_raxis2.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors copying build/lib/iotbx/detectors/raxis.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors copying build/lib/iotbx/detectors/bruker.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors copying build/lib/iotbx/detectors/marIP.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors copying build/lib/iotbx/detectors/active_area_filter.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors copying build/lib/iotbx/detectors/raxis_nonsquare.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors copying build/lib/iotbx/detectors/image_from_http_request.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors copying build/lib/iotbx/detectors/cspad_detector_formats.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors copying build/lib/iotbx/detectors/npy.py -> build/bdist.linux-x86_64/wheel/./iotbx/detectors copying build/lib/iotbx/__init__.py -> build/bdist.linux-x86_64/wheel/./iotbx copying build/lib/iotbx/ranges.py -> build/bdist.linux-x86_64/wheel/./iotbx creating build/bdist.linux-x86_64/wheel/iotbx/gui_tools copying build/lib/iotbx/gui_tools/import_data_and_flags.py -> build/bdist.linux-x86_64/wheel/./iotbx/gui_tools copying build/lib/iotbx/gui_tools/reflections.py -> build/bdist.linux-x86_64/wheel/./iotbx/gui_tools copying build/lib/iotbx/gui_tools/cif_conversions.py -> build/bdist.linux-x86_64/wheel/./iotbx/gui_tools copying build/lib/iotbx/gui_tools/__init__.py -> build/bdist.linux-x86_64/wheel/./iotbx/gui_tools copying build/lib/iotbx/gui_tools/models.py -> build/bdist.linux-x86_64/wheel/./iotbx/gui_tools copying build/lib/iotbx/gui_tools/tst.py -> build/bdist.linux-x86_64/wheel/./iotbx/gui_tools copying build/lib/iotbx/reflection_file_editor.py -> build/bdist.linux-x86_64/wheel/./iotbx copying build/lib/iotbx/run_tests.py -> build/bdist.linux-x86_64/wheel/./iotbx copying build/lib/iotbx/map_manager.py -> build/bdist.linux-x86_64/wheel/./iotbx creating build/bdist.linux-x86_64/wheel/iotbx/mrcfile copying build/lib/iotbx/mrcfile/__init__.py -> build/bdist.linux-x86_64/wheel/./iotbx/mrcfile copying build/lib/iotbx/mrcfile/crystal_symmetry_from_ccp4_map.py -> build/bdist.linux-x86_64/wheel/./iotbx/mrcfile creating build/bdist.linux-x86_64/wheel/iotbx/kriber copying build/lib/iotbx/kriber/strudat.py -> build/bdist.linux-x86_64/wheel/./iotbx/kriber copying build/lib/iotbx/kriber/__init__.py -> build/bdist.linux-x86_64/wheel/./iotbx/kriber copying build/lib/iotbx/kriber/tst_strudat.py -> build/bdist.linux-x86_64/wheel/./iotbx/kriber copying build/lib/iotbx/libtbx_refresh.py -> build/bdist.linux-x86_64/wheel/./iotbx creating build/bdist.linux-x86_64/wheel/iotbx/pdb copying build/lib/iotbx/pdb/download.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/tst_rna_dna_atom_names.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/remark_290_interpretation.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/tst_extract_rfactors_resolutions_sigma.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/cryst1_interpretation.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/amino_acid_codes.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/tst_hierarchy_flip_symmetric.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/aa_utils.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/nucleic_acid_codes.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/tst_secondary_structure.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/remark_2_interpretation.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/tst_hierarchy_flip_symmetric_2.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/web_service_api.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/mmcif.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/tst_atom_selection.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/remark_3_interpretation.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/tst_secondary_structure_2.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/tst_hierarchy.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/tst_utils.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/pdbe.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/extract_rfactors_resolutions_sigma.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/modified_aa_names.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/hierarchy.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/atom_name_interpretation.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/secondary_structure.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/tst_atom_selection_string.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/experiment_type.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/tst_hierarchy_atom_sort.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/tst_pdb.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/atom_selection.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/xray_structure.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/forward_compatible_pdb_cif_conversion.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/__init__.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/tst_read_mtrix_records_from_cif.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/rna_dna_detection.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/tst_mmcif_hierarchy.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/modified_rna_dna_names.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/hybrid_36.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb creating build/bdist.linux-x86_64/wheel/iotbx/pdb/remediation copying build/lib/iotbx/pdb/remediation/remediator.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb/remediation copying build/lib/iotbx/pdb/remediation/__init__.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb/remediation copying build/lib/iotbx/pdb/remediation/tst_remediator.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb/remediation copying build/lib/iotbx/pdb/tst_atom_name_interpretation.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/tst_mmcif.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/rcsb.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/tst_tls.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/misc_records_output.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/tst_mmcif_hierarchy_2.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/crystal_symmetry_from_pdb.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/fetch.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/records.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/tst_ext.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/utils.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb copying build/lib/iotbx/pdb/pdb_v3_cif_conversion.py -> build/bdist.linux-x86_64/wheel/./iotbx/pdb creating build/bdist.linux-x86_64/wheel/iotbx/ncs copying build/lib/iotbx/ncs/__init__.py -> build/bdist.linux-x86_64/wheel/./iotbx/ncs copying build/lib/iotbx/file_reader.py -> build/bdist.linux-x86_64/wheel/./iotbx creating build/bdist.linux-x86_64/wheel/iotbx/programs copying build/lib/iotbx/programs/split_data_cif.py -> build/bdist.linux-x86_64/wheel/./iotbx/programs copying build/lib/iotbx/programs/unique_with_biomt.py -> build/bdist.linux-x86_64/wheel/./iotbx/programs copying build/lib/iotbx/programs/box_around_molecule.py -> build/bdist.linux-x86_64/wheel/./iotbx/programs copying build/lib/iotbx/programs/__init__.py -> build/bdist.linux-x86_64/wheel/./iotbx/programs copying build/lib/iotbx/cli_parser.py -> build/bdist.linux-x86_64/wheel/./iotbx copying build/lib/iotbx/merging_statistics.py -> build/bdist.linux-x86_64/wheel/./iotbx copying build/lib/iotbx/format.py -> build/bdist.linux-x86_64/wheel/./iotbx copying build/lib/iotbx/crystal_symmetry_from_any.py -> build/bdist.linux-x86_64/wheel/./iotbx copying build/lib/iotbx/mtrix_biomt.py -> build/bdist.linux-x86_64/wheel/./iotbx creating build/bdist.linux-x86_64/wheel/iotbx/cns copying build/lib/iotbx/cns/crystal_symmetry_from_inp.py -> build/bdist.linux-x86_64/wheel/./iotbx/cns copying build/lib/iotbx/cns/reflection_reader.py -> build/bdist.linux-x86_64/wheel/./iotbx/cns copying build/lib/iotbx/cns/crystal_symmetry_utils.py -> build/bdist.linux-x86_64/wheel/./iotbx/cns copying build/lib/iotbx/cns/sdb_reader.py -> build/bdist.linux-x86_64/wheel/./iotbx/cns copying build/lib/iotbx/cns/sdb_writer.py -> build/bdist.linux-x86_64/wheel/./iotbx/cns copying build/lib/iotbx/cns/tst_cns.py -> build/bdist.linux-x86_64/wheel/./iotbx/cns copying build/lib/iotbx/cns/xray_structure.py -> build/bdist.linux-x86_64/wheel/./iotbx/cns copying build/lib/iotbx/cns/miller_array.py -> build/bdist.linux-x86_64/wheel/./iotbx/cns copying build/lib/iotbx/cns/__init__.py -> build/bdist.linux-x86_64/wheel/./iotbx/cns copying build/lib/iotbx/cns/space_group_symbols.py -> build/bdist.linux-x86_64/wheel/./iotbx/cns copying build/lib/iotbx/cns/crystal_symmetry_from_sdb.py -> build/bdist.linux-x86_64/wheel/./iotbx/cns copying build/lib/iotbx/cns/pdb_remarks.py -> build/bdist.linux-x86_64/wheel/./iotbx/cns copying build/lib/iotbx/cns/index_fobs_sigma_reader.py -> build/bdist.linux-x86_64/wheel/./iotbx/cns creating build/bdist.linux-x86_64/wheel/qttbx copying build/lib/qttbx/phil.py -> build/bdist.linux-x86_64/wheel/./qttbx copying build/lib/qttbx/__init__.py -> build/bdist.linux-x86_64/wheel/./qttbx creating build/bdist.linux-x86_64/wheel/qttbx/viewers copying build/lib/qttbx/viewers/__init__.py -> build/bdist.linux-x86_64/wheel/./qttbx/viewers copying build/lib/qttbx/viewers/chimerax.py -> build/bdist.linux-x86_64/wheel/./qttbx/viewers creating build/bdist.linux-x86_64/wheel/simtbx creating build/bdist.linux-x86_64/wheel/simtbx/gpu copying build/lib/simtbx/gpu/tst_shoeboxes.py -> build/bdist.linux-x86_64/wheel/./simtbx/gpu copying build/lib/simtbx/gpu/tst_gpu_multisource_background.py -> build/bdist.linux-x86_64/wheel/./simtbx/gpu copying build/lib/simtbx/gpu/__init__.py -> build/bdist.linux-x86_64/wheel/./simtbx/gpu copying build/lib/simtbx/gpu/tst_exafel_api.py -> build/bdist.linux-x86_64/wheel/./simtbx/gpu creating build/bdist.linux-x86_64/wheel/simtbx/kokkos copying build/lib/simtbx/kokkos/tst_kokkos_lib.py -> build/bdist.linux-x86_64/wheel/./simtbx/kokkos copying build/lib/simtbx/kokkos/__init__.py -> build/bdist.linux-x86_64/wheel/./simtbx/kokkos creating build/bdist.linux-x86_64/wheel/simtbx/pixel copying build/lib/simtbx/pixel/__init__.py -> build/bdist.linux-x86_64/wheel/./simtbx/pixel creating build/bdist.linux-x86_64/wheel/simtbx/diffBragg copying build/lib/simtbx/diffBragg/ensemble_refine_launcher.py -> build/bdist.linux-x86_64/wheel/./simtbx/diffBragg copying build/lib/simtbx/diffBragg/phil.py -> build/bdist.linux-x86_64/wheel/./simtbx/diffBragg copying build/lib/simtbx/diffBragg/psf.py -> build/bdist.linux-x86_64/wheel/./simtbx/diffBragg copying build/lib/simtbx/diffBragg/attr_list.py -> build/bdist.linux-x86_64/wheel/./simtbx/diffBragg copying build/lib/simtbx/diffBragg/device.py -> build/bdist.linux-x86_64/wheel/./simtbx/diffBragg creating build/bdist.linux-x86_64/wheel/simtbx/diffBragg/refiners creating build/bdist.linux-x86_64/wheel/simtbx/diffBragg/refiners/crystal_systems copying build/lib/simtbx/diffBragg/refiners/crystal_systems/manager.py -> build/bdist.linux-x86_64/wheel/./simtbx/diffBragg/refiners/crystal_systems copying build/lib/simtbx/diffBragg/refiners/crystal_systems/tetragonal.py -> build/bdist.linux-x86_64/wheel/./simtbx/diffBragg/refiners/crystal_systems copying build/lib/simtbx/diffBragg/refiners/crystal_systems/__init__.py -> build/bdist.linux-x86_64/wheel/./simtbx/diffBragg/refiners/crystal_systems copying build/lib/simtbx/diffBragg/refiners/crystal_systems/orthorhombic.py -> build/bdist.linux-x86_64/wheel/./simtbx/diffBragg/refiners/crystal_systems copying build/lib/simtbx/diffBragg/refiners/crystal_systems/monoclinic.py -> build/bdist.linux-x86_64/wheel/./simtbx/diffBragg/refiners/crystal_systems copying build/lib/simtbx/diffBragg/refiners/crystal_systems/hexagonal.py -> build/bdist.linux-x86_64/wheel/./simtbx/diffBragg/refiners/crystal_systems copying build/lib/simtbx/diffBragg/refiners/parameters.py -> build/bdist.linux-x86_64/wheel/./simtbx/diffBragg/refiners copying build/lib/simtbx/diffBragg/refiners/stage_two_refiner.py -> build/bdist.linux-x86_64/wheel/./simtbx/diffBragg/refiners copying build/lib/simtbx/diffBragg/refiners/__init__.py -> build/bdist.linux-x86_64/wheel/./simtbx/diffBragg/refiners copying build/lib/simtbx/diffBragg/refiners/geometry.py -> build/bdist.linux-x86_64/wheel/./simtbx/diffBragg/refiners copying build/lib/simtbx/diffBragg/refiners/base_refiner.py -> build/bdist.linux-x86_64/wheel/./simtbx/diffBragg/refiners copying build/lib/simtbx/diffBragg/hopper_io.py -> build/bdist.linux-x86_64/wheel/./simtbx/diffBragg copying build/lib/simtbx/diffBragg/mpi_logger.py -> build/bdist.linux-x86_64/wheel/./simtbx/diffBragg copying build/lib/simtbx/diffBragg/hopper_ensemble_utils.py -> build/bdist.linux-x86_64/wheel/./simtbx/diffBragg copying build/lib/simtbx/diffBragg/hopper_utils.py -> build/bdist.linux-x86_64/wheel/./simtbx/diffBragg copying build/lib/simtbx/diffBragg/prep_stage2_input.py -> build/bdist.linux-x86_64/wheel/./simtbx/diffBragg copying build/lib/simtbx/diffBragg/stage_two_utils.py -> build/bdist.linux-x86_64/wheel/./simtbx/diffBragg copying build/lib/simtbx/diffBragg/__init__.py -> build/bdist.linux-x86_64/wheel/./simtbx/diffBragg copying build/lib/simtbx/diffBragg/parameter_errors.py -> build/bdist.linux-x86_64/wheel/./simtbx/diffBragg copying build/lib/simtbx/diffBragg/utils.py -> build/bdist.linux-x86_64/wheel/./simtbx/diffBragg copying build/lib/simtbx/__init__.py -> build/bdist.linux-x86_64/wheel/./simtbx copying build/lib/simtbx/run_tests.py -> build/bdist.linux-x86_64/wheel/./simtbx creating build/bdist.linux-x86_64/wheel/simtbx/nanoBragg copying build/lib/simtbx/nanoBragg/nanoBragg_crystal.py -> build/bdist.linux-x86_64/wheel/./simtbx/nanoBragg copying build/lib/simtbx/nanoBragg/nanoBragg_gui_init.py -> build/bdist.linux-x86_64/wheel/./simtbx/nanoBragg copying build/lib/simtbx/nanoBragg/nanoBragg_input.py -> build/bdist.linux-x86_64/wheel/./simtbx/nanoBragg copying build/lib/simtbx/nanoBragg/tst_multisource_background.py -> build/bdist.linux-x86_64/wheel/./simtbx/nanoBragg copying build/lib/simtbx/nanoBragg/tst_nanoBragg_minimal.py -> build/bdist.linux-x86_64/wheel/./simtbx/nanoBragg copying build/lib/simtbx/nanoBragg/tst_anisotropic_mosaicity.py -> build/bdist.linux-x86_64/wheel/./simtbx/nanoBragg copying build/lib/simtbx/nanoBragg/tst_nanoBragg_basic.py -> build/bdist.linux-x86_64/wheel/./simtbx/nanoBragg copying build/lib/simtbx/nanoBragg/tst_gaussian_mosaicity2.py -> build/bdist.linux-x86_64/wheel/./simtbx/nanoBragg copying build/lib/simtbx/nanoBragg/tst_nanoBragg_pilatus.py -> build/bdist.linux-x86_64/wheel/./simtbx/nanoBragg copying build/lib/simtbx/nanoBragg/nanoBragg_gui_dialogs.py -> build/bdist.linux-x86_64/wheel/./simtbx/nanoBragg copying build/lib/simtbx/nanoBragg/tst_gaussian_mosaicity.py -> build/bdist.linux-x86_64/wheel/./simtbx/nanoBragg copying build/lib/simtbx/nanoBragg/sim_data.py -> build/bdist.linux-x86_64/wheel/./simtbx/nanoBragg copying build/lib/simtbx/nanoBragg/nanoBragg_beam.py -> build/bdist.linux-x86_64/wheel/./simtbx/nanoBragg copying build/lib/simtbx/nanoBragg/nanoBragg_threads.py -> build/bdist.linux-x86_64/wheel/./simtbx/nanoBragg copying build/lib/simtbx/nanoBragg/__init__.py -> build/bdist.linux-x86_64/wheel/./simtbx/nanoBragg copying build/lib/simtbx/nanoBragg/tst_nanoBragg_cbf_write.py -> build/bdist.linux-x86_64/wheel/./simtbx/nanoBragg copying build/lib/simtbx/nanoBragg/tst_nanoBragg_multipanel.py -> build/bdist.linux-x86_64/wheel/./simtbx/nanoBragg copying build/lib/simtbx/nanoBragg/tst_gauss_argchk.py -> build/bdist.linux-x86_64/wheel/./simtbx/nanoBragg copying build/lib/simtbx/nanoBragg/tst_nanoBragg_mosaic.py -> build/bdist.linux-x86_64/wheel/./simtbx/nanoBragg copying build/lib/simtbx/nanoBragg/nanoBragg_gui_frames.py -> build/bdist.linux-x86_64/wheel/./simtbx/nanoBragg copying build/lib/simtbx/nanoBragg/anisotropic_mosaicity.py -> build/bdist.linux-x86_64/wheel/./simtbx/nanoBragg copying build/lib/simtbx/nanoBragg/utils.py -> build/bdist.linux-x86_64/wheel/./simtbx/nanoBragg creating build/bdist.linux-x86_64/wheel/simtbx/modeling copying build/lib/simtbx/modeling/FormatHDF5AttributeGeometry.py -> build/bdist.linux-x86_64/wheel/./simtbx/modeling copying build/lib/simtbx/modeling/__init__.py -> build/bdist.linux-x86_64/wheel/./simtbx/modeling copying build/lib/simtbx/modeling/forward_models.py -> build/bdist.linux-x86_64/wheel/./simtbx/modeling copying build/lib/simtbx/modeling/predictions.py -> build/bdist.linux-x86_64/wheel/./simtbx/modeling creating build/bdist.linux-x86_64/wheel/omptbx copying build/lib/omptbx/__init__.py -> build/bdist.linux-x86_64/wheel/./omptbx copying build/lib/omptbx/tst.py -> build/bdist.linux-x86_64/wheel/./omptbx creating build/bdist.linux-x86_64/wheel/xcif creating build/bdist.linux-x86_64/wheel/xcif/regression copying build/lib/xcif/regression/tst_bindings.py -> build/bdist.linux-x86_64/wheel/./xcif/regression copying build/lib/xcif/regression/tst_example_tokenize.py -> build/bdist.linux-x86_64/wheel/./xcif/regression copying build/lib/xcif/regression/tst_utf8.py -> build/bdist.linux-x86_64/wheel/./xcif/regression copying build/lib/xcif/regression/tst_pdb_coordinates.py -> build/bdist.linux-x86_64/wheel/./xcif/regression copying build/lib/xcif/regression/tst_iotbx_cif_reader_parity.py -> build/bdist.linux-x86_64/wheel/./xcif/regression copying build/lib/xcif/regression/tst_gil_release.py -> build/bdist.linux-x86_64/wheel/./xcif/regression copying build/lib/xcif/regression/tst_semicolon_field_strict.py -> build/bdist.linux-x86_64/wheel/./xcif/regression copying build/lib/xcif/regression/tst_string_interning.py -> build/bdist.linux-x86_64/wheel/./xcif/regression copying build/lib/xcif/regression/tst_quoted_string_delimiter.py -> build/bdist.linux-x86_64/wheel/./xcif/regression copying build/lib/xcif/regression/tst_non_strict_mode.py -> build/bdist.linux-x86_64/wheel/./xcif/regression copying build/lib/xcif/regression/tst_example_parse.py -> build/bdist.linux-x86_64/wheel/./xcif/regression copying build/lib/xcif/regression/tst_memory.py -> build/bdist.linux-x86_64/wheel/./xcif/regression copying build/lib/xcif/regression/tst_iotbx_cif_reader_engine.py -> build/bdist.linux-x86_64/wheel/./xcif/regression copying build/lib/xcif/regression/tst_api_compat.py -> build/bdist.linux-x86_64/wheel/./xcif/regression copying build/lib/xcif/regression/tst_roundtrip.py -> build/bdist.linux-x86_64/wheel/./xcif/regression copying build/lib/xcif/regression/__init__.py -> build/bdist.linux-x86_64/wheel/./xcif/regression copying build/lib/xcif/regression/tst_parse_verify.py -> build/bdist.linux-x86_64/wheel/./xcif/regression copying build/lib/xcif/regression/tst_pdb_sf.py -> build/bdist.linux-x86_64/wheel/./xcif/regression creating build/bdist.linux-x86_64/wheel/xcif/benchmarks copying build/lib/xcif/benchmarks/__init__.py -> build/bdist.linux-x86_64/wheel/./xcif/benchmarks copying build/lib/xcif/benchmarks/run_benchmarks.py -> build/bdist.linux-x86_64/wheel/./xcif/benchmarks copying build/lib/xcif/__init__.py -> build/bdist.linux-x86_64/wheel/./xcif copying build/lib/xcif/run_tests.py -> build/bdist.linux-x86_64/wheel/./xcif creating build/bdist.linux-x86_64/wheel/fast_linalg copying build/lib/fast_linalg/__init__.py -> build/bdist.linux-x86_64/wheel/./fast_linalg creating build/bdist.linux-x86_64/wheel/serialtbx creating build/bdist.linux-x86_64/wheel/serialtbx/detector creating build/bdist.linux-x86_64/wheel/serialtbx/detector/legacy_metrology copying build/lib/serialtbx/detector/legacy_metrology/metrology.py -> build/bdist.linux-x86_64/wheel/./serialtbx/detector/legacy_metrology copying build/lib/serialtbx/detector/legacy_metrology/generic_detector.py -> build/bdist.linux-x86_64/wheel/./serialtbx/detector/legacy_metrology copying build/lib/serialtbx/detector/legacy_metrology/__init__.py -> build/bdist.linux-x86_64/wheel/./serialtbx/detector/legacy_metrology copying build/lib/serialtbx/detector/legacy_metrology/cspad_detector.py -> build/bdist.linux-x86_64/wheel/./serialtbx/detector/legacy_metrology copying build/lib/serialtbx/detector/rayonix.py -> build/bdist.linux-x86_64/wheel/./serialtbx/detector copying build/lib/serialtbx/detector/cspad.py -> build/bdist.linux-x86_64/wheel/./serialtbx/detector copying build/lib/serialtbx/detector/__init__.py -> build/bdist.linux-x86_64/wheel/./serialtbx/detector copying build/lib/serialtbx/detector/xtc.py -> build/bdist.linux-x86_64/wheel/./serialtbx/detector copying build/lib/serialtbx/detector/jungfrau.py -> build/bdist.linux-x86_64/wheel/./serialtbx/detector creating build/bdist.linux-x86_64/wheel/serialtbx/mono_simulation copying build/lib/serialtbx/mono_simulation/util.py -> build/bdist.linux-x86_64/wheel/./serialtbx/mono_simulation copying build/lib/serialtbx/mono_simulation/__init__.py -> build/bdist.linux-x86_64/wheel/./serialtbx/mono_simulation copying build/lib/serialtbx/mono_simulation/max_like.py -> build/bdist.linux-x86_64/wheel/./serialtbx/mono_simulation copying build/lib/serialtbx/__init__.py -> build/bdist.linux-x86_64/wheel/./serialtbx creating build/bdist.linux-x86_64/wheel/serialtbx/util copying build/lib/serialtbx/util/energy_scan_notch_finder.py -> build/bdist.linux-x86_64/wheel/./serialtbx/util copying build/lib/serialtbx/util/construct_frame.py -> build/bdist.linux-x86_64/wheel/./serialtbx/util copying build/lib/serialtbx/util/__init__.py -> build/bdist.linux-x86_64/wheel/./serialtbx/util copying build/lib/serialtbx/util/time.py -> build/bdist.linux-x86_64/wheel/./serialtbx/util creating build/bdist.linux-x86_64/wheel/scitbx creating build/bdist.linux-x86_64/wheel/scitbx/command_line copying build/lib/scitbx/command_line/show_sizes.py -> build/bdist.linux-x86_64/wheel/./scitbx/command_line copying build/lib/scitbx/command_line/histogram.py -> build/bdist.linux-x86_64/wheel/./scitbx/command_line copying build/lib/scitbx/command_line/generate_error_h.py -> build/bdist.linux-x86_64/wheel/./scitbx/command_line copying build/lib/scitbx/command_line/show_exp_times.py -> build/bdist.linux-x86_64/wheel/./scitbx/command_line copying build/lib/scitbx/command_line/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/command_line copying build/lib/scitbx/command_line/apply_tapenade_hints.py -> build/bdist.linux-x86_64/wheel/./scitbx/command_line copying build/lib/scitbx/command_line/unicode_examples.py -> build/bdist.linux-x86_64/wheel/./scitbx/command_line creating build/bdist.linux-x86_64/wheel/scitbx/examples copying build/lib/scitbx/examples/bootstrap.py -> build/bdist.linux-x86_64/wheel/./scitbx/examples copying build/lib/scitbx/examples/integrating_a_weighted_sinc_function.py -> build/bdist.linux-x86_64/wheel/./scitbx/examples copying build/lib/scitbx/examples/functions.py -> build/bdist.linux-x86_64/wheel/./scitbx/examples copying build/lib/scitbx/examples/minimizer_comparisons.py -> build/bdist.linux-x86_64/wheel/./scitbx/examples copying build/lib/scitbx/examples/lbfgs_linear_least_squares_fit.py -> build/bdist.linux-x86_64/wheel/./scitbx/examples copying build/lib/scitbx/examples/flex_array_loops.py -> build/bdist.linux-x86_64/wheel/./scitbx/examples copying build/lib/scitbx/examples/principal_axes_of_inertia.py -> build/bdist.linux-x86_64/wheel/./scitbx/examples copying build/lib/scitbx/examples/immoptibox_ports.py -> build/bdist.linux-x86_64/wheel/./scitbx/examples copying build/lib/scitbx/examples/chebyshev_lsq_example.py -> build/bdist.linux-x86_64/wheel/./scitbx/examples copying build/lib/scitbx/examples/flex_grid.py -> build/bdist.linux-x86_64/wheel/./scitbx/examples copying build/lib/scitbx/examples/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/examples copying build/lib/scitbx/examples/lbfgs_recipe.py -> build/bdist.linux-x86_64/wheel/./scitbx/examples creating build/bdist.linux-x86_64/wheel/scitbx/examples/bevington copying build/lib/scitbx/examples/bevington/silver.py -> build/bdist.linux-x86_64/wheel/./scitbx/examples/bevington copying build/lib/scitbx/examples/bevington/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/examples/bevington copying build/lib/scitbx/examples/rigid_body_refinement_core.py -> build/bdist.linux-x86_64/wheel/./scitbx/examples copying build/lib/scitbx/simplex.py -> build/bdist.linux-x86_64/wheel/./scitbx creating build/bdist.linux-x86_64/wheel/scitbx/stl copying build/lib/scitbx/stl/tst_map.py -> build/bdist.linux-x86_64/wheel/./scitbx/stl copying build/lib/scitbx/stl/vector.py -> build/bdist.linux-x86_64/wheel/./scitbx/stl copying build/lib/scitbx/stl/set.py -> build/bdist.linux-x86_64/wheel/./scitbx/stl copying build/lib/scitbx/stl/map.py -> build/bdist.linux-x86_64/wheel/./scitbx/stl copying build/lib/scitbx/stl/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/stl copying build/lib/scitbx/stl/tst_set.py -> build/bdist.linux-x86_64/wheel/./scitbx/stl copying build/lib/scitbx/stl/tst_vector.py -> build/bdist.linux-x86_64/wheel/./scitbx/stl creating build/bdist.linux-x86_64/wheel/scitbx/stdlib copying build/lib/scitbx/stdlib/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/stdlib copying build/lib/scitbx/minimizers.py -> build/bdist.linux-x86_64/wheel/./scitbx creating build/bdist.linux-x86_64/wheel/scitbx/suffixtree creating build/bdist.linux-x86_64/wheel/scitbx/suffixtree/test copying build/lib/scitbx/suffixtree/test/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/suffixtree/test copying build/lib/scitbx/suffixtree/test/tst_single.py -> build/bdist.linux-x86_64/wheel/./scitbx/suffixtree/test copying build/lib/scitbx/suffixtree/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/suffixtree creating build/bdist.linux-x86_64/wheel/scitbx/suffixtree/boost_python copying build/lib/scitbx/suffixtree/boost_python/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/suffixtree/boost_python copying build/lib/scitbx/suffixtree/single.py -> build/bdist.linux-x86_64/wheel/./scitbx/suffixtree creating build/bdist.linux-x86_64/wheel/scitbx/lbfgs creating build/bdist.linux-x86_64/wheel/scitbx/lbfgs/dev copying build/lib/scitbx/lbfgs/dev/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/lbfgs/dev copying build/lib/scitbx/lbfgs/dev/twisted_gaussian.py -> build/bdist.linux-x86_64/wheel/./scitbx/lbfgs/dev copying build/lib/scitbx/lbfgs/dev/run.py -> build/bdist.linux-x86_64/wheel/./scitbx/lbfgs/dev copying build/lib/scitbx/lbfgs/tst_func_free_line_search.py -> build/bdist.linux-x86_64/wheel/./scitbx/lbfgs copying build/lib/scitbx/lbfgs/tst_curvatures.py -> build/bdist.linux-x86_64/wheel/./scitbx/lbfgs copying build/lib/scitbx/lbfgs/tst_mpi_split_evaluator.py -> build/bdist.linux-x86_64/wheel/./scitbx/lbfgs copying build/lib/scitbx/lbfgs/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/lbfgs copying build/lib/scitbx/lbfgs/tst_lbfgs_fem.py -> build/bdist.linux-x86_64/wheel/./scitbx/lbfgs copying build/lib/scitbx/lbfgs/tst_ext.py -> build/bdist.linux-x86_64/wheel/./scitbx/lbfgs creating build/bdist.linux-x86_64/wheel/scitbx/graph copying build/lib/scitbx/graph/test_cases_tardy_pdb.py -> build/bdist.linux-x86_64/wheel/./scitbx/graph copying build/lib/scitbx/graph/rigidity_matrix_symbolic.py -> build/bdist.linux-x86_64/wheel/./scitbx/graph copying build/lib/scitbx/graph/tst_utils.py -> build/bdist.linux-x86_64/wheel/./scitbx/graph copying build/lib/scitbx/graph/tst_rigidity.py -> build/bdist.linux-x86_64/wheel/./scitbx/graph copying build/lib/scitbx/graph/tst_tardy_tree_find_paths.py -> build/bdist.linux-x86_64/wheel/./scitbx/graph copying build/lib/scitbx/graph/rigidity.py -> build/bdist.linux-x86_64/wheel/./scitbx/graph copying build/lib/scitbx/graph/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/graph copying build/lib/scitbx/graph/tst_tardy_tree.py -> build/bdist.linux-x86_64/wheel/./scitbx/graph copying build/lib/scitbx/graph/tardy_tree.py -> build/bdist.linux-x86_64/wheel/./scitbx/graph copying build/lib/scitbx/graph/utils.py -> build/bdist.linux-x86_64/wheel/./scitbx/graph creating build/bdist.linux-x86_64/wheel/scitbx/matrix copying build/lib/scitbx/matrix/row_echelon.py -> build/bdist.linux-x86_64/wheel/./scitbx/matrix creating build/bdist.linux-x86_64/wheel/scitbx/matrix/tests copying build/lib/scitbx/matrix/tests/tst_householder.py -> build/bdist.linux-x86_64/wheel/./scitbx/matrix/tests copying build/lib/scitbx/matrix/tests/tst_row_echelon.py -> build/bdist.linux-x86_64/wheel/./scitbx/matrix/tests copying build/lib/scitbx/matrix/tests/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/matrix/tests copying build/lib/scitbx/matrix/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/matrix copying build/lib/scitbx/fftpack.py -> build/bdist.linux-x86_64/wheel/./scitbx creating build/bdist.linux-x86_64/wheel/scitbx/slatec copying build/lib/scitbx/slatec/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/slatec creating build/bdist.linux-x86_64/wheel/scitbx/linalg copying build/lib/scitbx/linalg/householder.py -> build/bdist.linux-x86_64/wheel/./scitbx/linalg copying build/lib/scitbx/linalg/svd.py -> build/bdist.linux-x86_64/wheel/./scitbx/linalg creating build/bdist.linux-x86_64/wheel/scitbx/linalg/tests copying build/lib/scitbx/linalg/tests/tst_svd.py -> build/bdist.linux-x86_64/wheel/./scitbx/linalg/tests copying build/lib/scitbx/linalg/tests/tst_matrix.py -> build/bdist.linux-x86_64/wheel/./scitbx/linalg/tests copying build/lib/scitbx/linalg/tests/tst_lapack_dsyev.py -> build/bdist.linux-x86_64/wheel/./scitbx/linalg/tests copying build/lib/scitbx/linalg/tests/tst_cholesky.py -> build/bdist.linux-x86_64/wheel/./scitbx/linalg/tests copying build/lib/scitbx/linalg/tests/tst_lapack_svd.py -> build/bdist.linux-x86_64/wheel/./scitbx/linalg/tests copying build/lib/scitbx/linalg/tests/tst_eigensystem.py -> build/bdist.linux-x86_64/wheel/./scitbx/linalg/tests copying build/lib/scitbx/linalg/tests/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/linalg/tests copying build/lib/scitbx/linalg/eigensystem.py -> build/bdist.linux-x86_64/wheel/./scitbx/linalg copying build/lib/scitbx/linalg/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/linalg creating build/bdist.linux-x86_64/wheel/scitbx/linalg/boost_python copying build/lib/scitbx/linalg/boost_python/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/linalg/boost_python copying build/lib/scitbx/linalg/ext.py -> build/bdist.linux-x86_64/wheel/./scitbx/linalg copying build/lib/scitbx/differential_evolution.py -> build/bdist.linux-x86_64/wheel/./scitbx creating build/bdist.linux-x86_64/wheel/scitbx/wigner copying build/lib/scitbx/wigner/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/wigner copying build/lib/scitbx/wigner/tst_wigner3j.py -> build/bdist.linux-x86_64/wheel/./scitbx/wigner copying build/lib/scitbx/direct_search_simulated_annealing.py -> build/bdist.linux-x86_64/wheel/./scitbx copying build/lib/scitbx/regular_grid_on_unit_sphere.py -> build/bdist.linux-x86_64/wheel/./scitbx creating build/bdist.linux-x86_64/wheel/scitbx/dtmin copying build/lib/scitbx/dtmin/reparams.py -> build/bdist.linux-x86_64/wheel/./scitbx/dtmin copying build/lib/scitbx/dtmin/min_logging.py -> build/bdist.linux-x86_64/wheel/./scitbx/dtmin copying build/lib/scitbx/dtmin/refinebase.py -> build/bdist.linux-x86_64/wheel/./scitbx/dtmin copying build/lib/scitbx/dtmin/bounds.py -> build/bdist.linux-x86_64/wheel/./scitbx/dtmin creating build/bdist.linux-x86_64/wheel/scitbx/dtmin/regression copying build/lib/scitbx/dtmin/regression/tst_dtmin_twisted.py -> build/bdist.linux-x86_64/wheel/./scitbx/dtmin/regression copying build/lib/scitbx/dtmin/regression/tst_dtmin_booth.py -> build/bdist.linux-x86_64/wheel/./scitbx/dtmin/regression copying build/lib/scitbx/dtmin/regression/tst_dtmin_basic.py -> build/bdist.linux-x86_64/wheel/./scitbx/dtmin/regression copying build/lib/scitbx/dtmin/regression/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/dtmin/regression copying build/lib/scitbx/dtmin/auxiliary.py -> build/bdist.linux-x86_64/wheel/./scitbx/dtmin copying build/lib/scitbx/dtmin/optional.py -> build/bdist.linux-x86_64/wheel/./scitbx/dtmin copying build/lib/scitbx/dtmin/minimizer.py -> build/bdist.linux-x86_64/wheel/./scitbx/dtmin copying build/lib/scitbx/dtmin/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/dtmin copying build/lib/scitbx/dtmin/compulsory.py -> build/bdist.linux-x86_64/wheel/./scitbx/dtmin copying build/lib/scitbx/dtmin/realsymmetricpseudoinverse.py -> build/bdist.linux-x86_64/wheel/./scitbx/dtmin copying build/lib/scitbx/dtmin/twisted_gaussian.py -> build/bdist.linux-x86_64/wheel/./scitbx/dtmin creating build/bdist.linux-x86_64/wheel/scitbx/serialization copying build/lib/scitbx/serialization/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/serialization creating build/bdist.linux-x86_64/wheel/scitbx/iso_surface copying build/lib/scitbx/iso_surface/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/iso_surface copying build/lib/scitbx/iso_surface/tst_iso_surface.py -> build/bdist.linux-x86_64/wheel/./scitbx/iso_surface copying build/lib/scitbx/cubicle_neighbors.py -> build/bdist.linux-x86_64/wheel/./scitbx copying build/lib/scitbx/smoothing.py -> build/bdist.linux-x86_64/wheel/./scitbx creating build/bdist.linux-x86_64/wheel/scitbx/tests copying build/lib/scitbx/tests/simplex.py -> build/bdist.linux-x86_64/wheel/./scitbx/tests copying build/lib/scitbx/tests/tst_r3_utils.py -> build/bdist.linux-x86_64/wheel/./scitbx/tests copying build/lib/scitbx/tests/tst_basic.py -> build/bdist.linux-x86_64/wheel/./scitbx/tests copying build/lib/scitbx/tests/differential_evolution.py -> build/bdist.linux-x86_64/wheel/./scitbx/tests copying build/lib/scitbx/tests/direct_search_simulated_annealing.py -> build/bdist.linux-x86_64/wheel/./scitbx/tests copying build/lib/scitbx/tests/golden_section_search.py -> build/bdist.linux-x86_64/wheel/./scitbx/tests copying build/lib/scitbx/tests/tst_minimizer_lbfgs_general.py -> build/bdist.linux-x86_64/wheel/./scitbx/tests copying build/lib/scitbx/tests/tst_genetic_algorithm_with_mp.py -> build/bdist.linux-x86_64/wheel/./scitbx/tests copying build/lib/scitbx/tests/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/tests copying build/lib/scitbx/tests/tst_cubicle_neighbors.py -> build/bdist.linux-x86_64/wheel/./scitbx/tests copying build/lib/scitbx/tests/tst_smoothing.py -> build/bdist.linux-x86_64/wheel/./scitbx/tests copying build/lib/scitbx/tests/tst_regular_grid_on_unit_sphere.py -> build/bdist.linux-x86_64/wheel/./scitbx/tests copying build/lib/scitbx/lbfgsb.py -> build/bdist.linux-x86_64/wheel/./scitbx creating build/bdist.linux-x86_64/wheel/scitbx/array_family creating build/bdist.linux-x86_64/wheel/scitbx/array_family/detail copying build/lib/scitbx/array_family/detail/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/array_family/detail copying build/lib/scitbx/array_family/flex.py -> build/bdist.linux-x86_64/wheel/./scitbx/array_family creating build/bdist.linux-x86_64/wheel/scitbx/array_family/accessors copying build/lib/scitbx/array_family/accessors/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/array_family/accessors copying build/lib/scitbx/array_family/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/array_family creating build/bdist.linux-x86_64/wheel/scitbx/array_family/boost_python copying build/lib/scitbx/array_family/boost_python/tst_numpy_bridge.py -> build/bdist.linux-x86_64/wheel/./scitbx/array_family/boost_python copying build/lib/scitbx/array_family/boost_python/tst_shared.py -> build/bdist.linux-x86_64/wheel/./scitbx/array_family/boost_python copying build/lib/scitbx/array_family/boost_python/tst_cost_of_m_handle_in_af_shared.py -> build/bdist.linux-x86_64/wheel/./scitbx/array_family/boost_python copying build/lib/scitbx/array_family/boost_python/tst_flex.py -> build/bdist.linux-x86_64/wheel/./scitbx/array_family/boost_python copying build/lib/scitbx/array_family/boost_python/regression_test.py -> build/bdist.linux-x86_64/wheel/./scitbx/array_family/boost_python copying build/lib/scitbx/array_family/boost_python/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/array_family/boost_python copying build/lib/scitbx/array_family/boost_python/tst_integer_offsets_vs_pointers.py -> build/bdist.linux-x86_64/wheel/./scitbx/array_family/boost_python copying build/lib/scitbx/array_family/boost_python/tst_flex_argument_passing.py -> build/bdist.linux-x86_64/wheel/./scitbx/array_family/boost_python copying build/lib/scitbx/array_family/boost_python/tst_smart_selection.py -> build/bdist.linux-x86_64/wheel/./scitbx/array_family/boost_python copying build/lib/scitbx/array_family/shared.py -> build/bdist.linux-x86_64/wheel/./scitbx/array_family creating build/bdist.linux-x86_64/wheel/scitbx/math copying build/lib/scitbx/math/chebyshev_lsq_fit.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/gaussian_fit.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/distributions.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/tst_undirected_graph.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/curve_fitting.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/incremental_SO3_sampling.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/tst_zernike_mom.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/minimum_covering_ellipsoid.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/tst_multivariate_moments.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/cubic_spline.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/fit_peak.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/tst_zernike.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/clustering.py -> build/bdist.linux-x86_64/wheel/./scitbx/math creating build/bdist.linux-x86_64/wheel/scitbx/math/dev copying build/lib/scitbx/math/dev/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/math/dev copying build/lib/scitbx/math/des_3_100_13.py -> build/bdist.linux-x86_64/wheel/./scitbx/math creating build/bdist.linux-x86_64/wheel/scitbx/math/tests copying build/lib/scitbx/math/tests/tst_fit_peak.py -> build/bdist.linux-x86_64/wheel/./scitbx/math/tests copying build/lib/scitbx/math/tests/tst_line_search.py -> build/bdist.linux-x86_64/wheel/./scitbx/math/tests copying build/lib/scitbx/math/tests/tst_error_propagation_matrix_inverse.py -> build/bdist.linux-x86_64/wheel/./scitbx/math/tests copying build/lib/scitbx/math/tests/tst_tetrahedron.py -> build/bdist.linux-x86_64/wheel/./scitbx/math/tests copying build/lib/scitbx/math/tests/tst_resample.py -> build/bdist.linux-x86_64/wheel/./scitbx/math/tests copying build/lib/scitbx/math/tests/tst_dmatrix.py -> build/bdist.linux-x86_64/wheel/./scitbx/math/tests copying build/lib/scitbx/math/tests/tst_angle_derivative.py -> build/bdist.linux-x86_64/wheel/./scitbx/math/tests copying build/lib/scitbx/math/tests/tst_math.py -> build/bdist.linux-x86_64/wheel/./scitbx/math/tests copying build/lib/scitbx/math/tests/tst_exp_functions.py -> build/bdist.linux-x86_64/wheel/./scitbx/math/tests copying build/lib/scitbx/math/tests/tst_euler_angles.py -> build/bdist.linux-x86_64/wheel/./scitbx/math/tests copying build/lib/scitbx/math/tests/tst_orthonormal_basis.py -> build/bdist.linux-x86_64/wheel/./scitbx/math/tests copying build/lib/scitbx/math/tests/tst_similarity_indices.py -> build/bdist.linux-x86_64/wheel/./scitbx/math/tests copying build/lib/scitbx/math/tests/tst_gcd.py -> build/bdist.linux-x86_64/wheel/./scitbx/math/tests copying build/lib/scitbx/math/tests/tst_g_function.py -> build/bdist.linux-x86_64/wheel/./scitbx/math/tests copying build/lib/scitbx/math/tests/tst_weighted_correlation.py -> build/bdist.linux-x86_64/wheel/./scitbx/math/tests copying build/lib/scitbx/math/tests/tst_gaussian.py -> build/bdist.linux-x86_64/wheel/./scitbx/math/tests copying build/lib/scitbx/math/tests/tst_bessel.py -> build/bdist.linux-x86_64/wheel/./scitbx/math/tests copying build/lib/scitbx/math/tests/tst_uniform_rotation_matrix.py -> build/bdist.linux-x86_64/wheel/./scitbx/math/tests copying build/lib/scitbx/math/tests/tst_halton.py -> build/bdist.linux-x86_64/wheel/./scitbx/math/tests copying build/lib/scitbx/math/tests/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/math/tests copying build/lib/scitbx/math/tests/tst_curve_fitting.py -> build/bdist.linux-x86_64/wheel/./scitbx/math/tests copying build/lib/scitbx/math/tests/tst_gaussian_fit_1d_analytical.py -> build/bdist.linux-x86_64/wheel/./scitbx/math/tests copying build/lib/scitbx/math/tests/tst_clustering.py -> build/bdist.linux-x86_64/wheel/./scitbx/math/tests copying build/lib/scitbx/math/tests/tst_r3_rotation.py -> build/bdist.linux-x86_64/wheel/./scitbx/math/tests copying build/lib/scitbx/math/tests/tst_quadrature.py -> build/bdist.linux-x86_64/wheel/./scitbx/math/tests copying build/lib/scitbx/math/tests/tst_periodogram.py -> build/bdist.linux-x86_64/wheel/./scitbx/math/tests copying build/lib/scitbx/math/tests/tst_minimum_covering_ellipsoid.py -> build/bdist.linux-x86_64/wheel/./scitbx/math/tests copying build/lib/scitbx/math/tests/tst_cubic_equation.py -> build/bdist.linux-x86_64/wheel/./scitbx/math/tests copying build/lib/scitbx/math/tests/tst_fit_quadratic_function.py -> build/bdist.linux-x86_64/wheel/./scitbx/math/tests copying build/lib/scitbx/math/tests/tst_superpose.py -> build/bdist.linux-x86_64/wheel/./scitbx/math/tests copying build/lib/scitbx/math/sphere_sphere_intersection.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/tst_so3_lie_algebra.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/undirected_graph.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/des_3_240_21.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/zernike_align_fft.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/scale_curves.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/tst_2d_zernike.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/so3_lie_algebra.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/sieve_of_eratosthenes.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/spe.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/breakpoint.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/euler_angles.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/fit_quadratic_function.py -> build/bdist.linux-x86_64/wheel/./scitbx/math creating build/bdist.linux-x86_64/wheel/scitbx/math/boost_python copying build/lib/scitbx/math/boost_python/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/math/boost_python copying build/lib/scitbx/math/superpose.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/periodogram.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/fliege_mayer_900.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/multiple_superposition.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/fliege_mayer_400.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/ext.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/tst_bessel_zeros.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/gumbel.py -> build/bdist.linux-x86_64/wheel/./scitbx/math creating build/bdist.linux-x86_64/wheel/scitbx/math/erf copying build/lib/scitbx/math/erf/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/math/erf copying build/lib/scitbx/math/besselk.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/gaussian.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/lefebvre.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/fliege_mayer_900_ylm.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/math/farey.py -> build/bdist.linux-x86_64/wheel/./scitbx/math copying build/lib/scitbx/golden_section_search.py -> build/bdist.linux-x86_64/wheel/./scitbx creating build/bdist.linux-x86_64/wheel/scitbx/sparse creating build/bdist.linux-x86_64/wheel/scitbx/sparse/tests copying build/lib/scitbx/sparse/tests/tst_sparse.py -> build/bdist.linux-x86_64/wheel/./scitbx/sparse/tests copying build/lib/scitbx/sparse/tests/tst_lu_factorization.py -> build/bdist.linux-x86_64/wheel/./scitbx/sparse/tests copying build/lib/scitbx/sparse/tests/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/sparse/tests copying build/lib/scitbx/sparse/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/sparse creating build/bdist.linux-x86_64/wheel/scitbx/sparse/boost_python copying build/lib/scitbx/sparse/boost_python/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/sparse/boost_python copying build/lib/scitbx/genetic_algorithm_with_mp.py -> build/bdist.linux-x86_64/wheel/./scitbx creating build/bdist.linux-x86_64/wheel/scitbx/glmtbx creating build/bdist.linux-x86_64/wheel/scitbx/glmtbx/tests copying build/lib/scitbx/glmtbx/tests/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/glmtbx/tests copying build/lib/scitbx/glmtbx/tests/tst.py -> build/bdist.linux-x86_64/wheel/./scitbx/glmtbx/tests copying build/lib/scitbx/glmtbx/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/glmtbx creating build/bdist.linux-x86_64/wheel/scitbx/glmtbx/boost_python copying build/lib/scitbx/glmtbx/boost_python/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/glmtbx/boost_python creating build/bdist.linux-x86_64/wheel/scitbx/source_generators copying build/lib/scitbx/source_generators/lbfgs_fem.py -> build/bdist.linux-x86_64/wheel/./scitbx/source_generators creating build/bdist.linux-x86_64/wheel/scitbx/source_generators/array_family copying build/lib/scitbx/source_generators/array_family/generate_reductions.py -> build/bdist.linux-x86_64/wheel/./scitbx/source_generators/array_family copying build/lib/scitbx/source_generators/array_family/generate_std_imports.py -> build/bdist.linux-x86_64/wheel/./scitbx/source_generators/array_family copying build/lib/scitbx/source_generators/array_family/generate_algebras.py -> build/bdist.linux-x86_64/wheel/./scitbx/source_generators/array_family copying build/lib/scitbx/source_generators/array_family/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/source_generators/array_family copying build/lib/scitbx/source_generators/array_family/generate_operator_traits_builtin.py -> build/bdist.linux-x86_64/wheel/./scitbx/source_generators/array_family copying build/lib/scitbx/source_generators/array_family/generate_operator_functors.py -> build/bdist.linux-x86_64/wheel/./scitbx/source_generators/array_family copying build/lib/scitbx/source_generators/array_family/operator_functor_info.py -> build/bdist.linux-x86_64/wheel/./scitbx/source_generators/array_family copying build/lib/scitbx/source_generators/array_family/generate_all.py -> build/bdist.linux-x86_64/wheel/./scitbx/source_generators/array_family copying build/lib/scitbx/source_generators/array_family/generate_apply.py -> build/bdist.linux-x86_64/wheel/./scitbx/source_generators/array_family copying build/lib/scitbx/source_generators/flex_fwd_h.py -> build/bdist.linux-x86_64/wheel/./scitbx/source_generators copying build/lib/scitbx/source_generators/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/source_generators copying build/lib/scitbx/source_generators/utils.py -> build/bdist.linux-x86_64/wheel/./scitbx/source_generators copying build/lib/scitbx/minpack.py -> build/bdist.linux-x86_64/wheel/./scitbx creating build/bdist.linux-x86_64/wheel/scitbx/lstbx copying build/lib/scitbx/lstbx/normal_eqns_solving.py -> build/bdist.linux-x86_64/wheel/./scitbx/lstbx creating build/bdist.linux-x86_64/wheel/scitbx/lstbx/tests copying build/lib/scitbx/lstbx/tests/tst_normal_equations.py -> build/bdist.linux-x86_64/wheel/./scitbx/lstbx/tests copying build/lib/scitbx/lstbx/tests/test_problems.py -> build/bdist.linux-x86_64/wheel/./scitbx/lstbx/tests copying build/lib/scitbx/lstbx/tests/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/lstbx/tests creating build/bdist.linux-x86_64/wheel/scitbx/lstbx/benchmarks copying build/lib/scitbx/lstbx/benchmarks/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/lstbx/benchmarks copying build/lib/scitbx/lstbx/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/lstbx creating build/bdist.linux-x86_64/wheel/scitbx/lstbx/boost_python copying build/lib/scitbx/lstbx/boost_python/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/lstbx/boost_python copying build/lib/scitbx/lstbx/normal_eqns.py -> build/bdist.linux-x86_64/wheel/./scitbx/lstbx creating build/bdist.linux-x86_64/wheel/scitbx/line_search copying build/lib/scitbx/line_search/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/line_search creating build/bdist.linux-x86_64/wheel/scitbx/rigid_body copying build/lib/scitbx/rigid_body/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/rigid_body creating build/bdist.linux-x86_64/wheel/scitbx/rigid_body/proto copying build/lib/scitbx/rigid_body/proto/tst_featherstone.py -> build/bdist.linux-x86_64/wheel/./scitbx/rigid_body/proto copying build/lib/scitbx/rigid_body/proto/test_utils.py -> build/bdist.linux-x86_64/wheel/./scitbx/rigid_body/proto copying build/lib/scitbx/rigid_body/proto/tst_joint_lib.py -> build/bdist.linux-x86_64/wheel/./scitbx/rigid_body/proto copying build/lib/scitbx/rigid_body/proto/wx_free_motion.py -> build/bdist.linux-x86_64/wheel/./scitbx/rigid_body/proto copying build/lib/scitbx/rigid_body/proto/tst_free_motion.py -> build/bdist.linux-x86_64/wheel/./scitbx/rigid_body/proto copying build/lib/scitbx/rigid_body/proto/free_motion_reference_impl.py -> build/bdist.linux-x86_64/wheel/./scitbx/rigid_body/proto copying build/lib/scitbx/rigid_body/proto/joint_lib.py -> build/bdist.linux-x86_64/wheel/./scitbx/rigid_body/proto copying build/lib/scitbx/rigid_body/proto/tst_free_motion_hard.py -> build/bdist.linux-x86_64/wheel/./scitbx/rigid_body/proto copying build/lib/scitbx/rigid_body/proto/wx_joint_lib.py -> build/bdist.linux-x86_64/wheel/./scitbx/rigid_body/proto copying build/lib/scitbx/rigid_body/proto/tst_molecules.py -> build/bdist.linux-x86_64/wheel/./scitbx/rigid_body/proto copying build/lib/scitbx/rigid_body/proto/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/rigid_body/proto copying build/lib/scitbx/rigid_body/proto/featherstone.py -> build/bdist.linux-x86_64/wheel/./scitbx/rigid_body/proto copying build/lib/scitbx/rigid_body/proto/wx_molecules.py -> build/bdist.linux-x86_64/wheel/./scitbx/rigid_body/proto copying build/lib/scitbx/rigid_body/proto/tst_spherical_refinement.py -> build/bdist.linux-x86_64/wheel/./scitbx/rigid_body/proto copying build/lib/scitbx/rigid_body/proto/tst_singular.py -> build/bdist.linux-x86_64/wheel/./scitbx/rigid_body/proto copying build/lib/scitbx/rigid_body/proto/test_simulation.py -> build/bdist.linux-x86_64/wheel/./scitbx/rigid_body/proto copying build/lib/scitbx/rigid_body/proto/utils.py -> build/bdist.linux-x86_64/wheel/./scitbx/rigid_body/proto copying build/lib/scitbx/rigid_body/tst.py -> build/bdist.linux-x86_64/wheel/./scitbx/rigid_body creating build/bdist.linux-x86_64/wheel/scitbx/rigid_body/essence copying build/lib/scitbx/rigid_body/essence/tst_basic.py -> build/bdist.linux-x86_64/wheel/./scitbx/rigid_body/essence copying build/lib/scitbx/rigid_body/essence/tst_tardy.py -> build/bdist.linux-x86_64/wheel/./scitbx/rigid_body/essence copying build/lib/scitbx/rigid_body/essence/spatial_lib.py -> build/bdist.linux-x86_64/wheel/./scitbx/rigid_body/essence copying build/lib/scitbx/rigid_body/essence/joint_lib.py -> build/bdist.linux-x86_64/wheel/./scitbx/rigid_body/essence copying build/lib/scitbx/rigid_body/essence/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/rigid_body/essence copying build/lib/scitbx/rigid_body/essence/featherstone.py -> build/bdist.linux-x86_64/wheel/./scitbx/rigid_body/essence copying build/lib/scitbx/rigid_body/essence/body_lib.py -> build/bdist.linux-x86_64/wheel/./scitbx/rigid_body/essence copying build/lib/scitbx/rigid_body/essence/make_bundles.py -> build/bdist.linux-x86_64/wheel/./scitbx/rigid_body/essence copying build/lib/scitbx/rigid_body/essence/tst_energy_plots.py -> build/bdist.linux-x86_64/wheel/./scitbx/rigid_body/essence copying build/lib/scitbx/rigid_body/essence/wx_tardy.py -> build/bdist.linux-x86_64/wheel/./scitbx/rigid_body/essence copying build/lib/scitbx/rigid_body/essence/tardy.py -> build/bdist.linux-x86_64/wheel/./scitbx/rigid_body/essence copying build/lib/scitbx/cross_entropy.py -> build/bdist.linux-x86_64/wheel/./scitbx copying build/lib/scitbx/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx creating build/bdist.linux-x86_64/wheel/scitbx/misc copying build/lib/scitbx/misc/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/misc creating build/bdist.linux-x86_64/wheel/scitbx/boost_python copying build/lib/scitbx/boost_python/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/boost_python copying build/lib/scitbx/run_tests.py -> build/bdist.linux-x86_64/wheel/./scitbx creating build/bdist.linux-x86_64/wheel/scitbx/error copying build/lib/scitbx/error/tst_error.py -> build/bdist.linux-x86_64/wheel/./scitbx/error copying build/lib/scitbx/error/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/error copying build/lib/scitbx/libtbx_refresh.py -> build/bdist.linux-x86_64/wheel/./scitbx creating build/bdist.linux-x86_64/wheel/scitbx/python_utils copying build/lib/scitbx/python_utils/graph_tools.py -> build/bdist.linux-x86_64/wheel/./scitbx/python_utils copying build/lib/scitbx/python_utils/random_transform.py -> build/bdist.linux-x86_64/wheel/./scitbx/python_utils copying build/lib/scitbx/python_utils/tst_random_transform.py -> build/bdist.linux-x86_64/wheel/./scitbx/python_utils copying build/lib/scitbx/python_utils/tst_robust.py -> build/bdist.linux-x86_64/wheel/./scitbx/python_utils copying build/lib/scitbx/python_utils/dicts.py -> build/bdist.linux-x86_64/wheel/./scitbx/python_utils copying build/lib/scitbx/python_utils/robust_statistics.py -> build/bdist.linux-x86_64/wheel/./scitbx/python_utils copying build/lib/scitbx/python_utils/tst_graph.py -> build/bdist.linux-x86_64/wheel/./scitbx/python_utils copying build/lib/scitbx/python_utils/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/python_utils copying build/lib/scitbx/python_utils/signal_utils.py -> build/bdist.linux-x86_64/wheel/./scitbx/python_utils copying build/lib/scitbx/python_utils/command_line.py -> build/bdist.linux-x86_64/wheel/./scitbx/python_utils copying build/lib/scitbx/python_utils/misc.py -> build/bdist.linux-x86_64/wheel/./scitbx/python_utils creating build/bdist.linux-x86_64/wheel/scitbx/random creating build/bdist.linux-x86_64/wheel/scitbx/random/tests copying build/lib/scitbx/random/tests/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/random/tests copying build/lib/scitbx/random/tests/tst_random.py -> build/bdist.linux-x86_64/wheel/./scitbx/random/tests copying build/lib/scitbx/random/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/random creating build/bdist.linux-x86_64/wheel/scitbx/random/boost_python copying build/lib/scitbx/random/boost_python/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/random/boost_python copying build/lib/scitbx/r3_utils.py -> build/bdist.linux-x86_64/wheel/./scitbx creating build/bdist.linux-x86_64/wheel/scitbx/graphics_utils copying build/lib/scitbx/graphics_utils/__init__.py -> build/bdist.linux-x86_64/wheel/./scitbx/graphics_utils copying build/lib/scitbx/graphics_utils/tst.py -> build/bdist.linux-x86_64/wheel/./scitbx/graphics_utils copying build/lib/scitbx/restraints.py -> build/bdist.linux-x86_64/wheel/./scitbx creating build/bdist.linux-x86_64/wheel/cctbx creating build/bdist.linux-x86_64/wheel/cctbx/command_line copying build/lib/cctbx/command_line/form_factor_query.py -> build/bdist.linux-x86_64/wheel/./cctbx/command_line copying build/lib/cctbx/command_line/cctbx_test_nightly.py -> build/bdist.linux-x86_64/wheel/./cctbx/command_line copying build/lib/cctbx/command_line/cod_select_and_pickle.py -> build/bdist.linux-x86_64/wheel/./cctbx/command_line copying build/lib/cctbx/command_line/samosa_join.py -> build/bdist.linux-x86_64/wheel/./cctbx/command_line copying build/lib/cctbx/command_line/samosa_scale.py -> build/bdist.linux-x86_64/wheel/./cctbx/command_line copying build/lib/cctbx/command_line/euclidean_model_matching.py -> build/bdist.linux-x86_64/wheel/./cctbx/command_line copying build/lib/cctbx/command_line/eltbx.show_fp_fdp.py -> build/bdist.linux-x86_64/wheel/./cctbx/command_line copying build/lib/cctbx/command_line/diffuse.py -> build/bdist.linux-x86_64/wheel/./cctbx/command_line copying build/lib/cctbx/command_line/brehm_diederichs.py -> build/bdist.linux-x86_64/wheel/./cctbx/command_line copying build/lib/cctbx/command_line/precession_view.py -> build/bdist.linux-x86_64/wheel/./cctbx/command_line copying build/lib/cctbx/command_line/space_group_info.py -> build/bdist.linux-x86_64/wheel/./cctbx/command_line copying build/lib/cctbx/command_line/qscore.py -> build/bdist.linux-x86_64/wheel/./cctbx/command_line copying build/lib/cctbx/command_line/segment_and_split_map.py -> build/bdist.linux-x86_64/wheel/./cctbx/command_line copying build/lib/cctbx/command_line/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/command_line copying build/lib/cctbx/command_line/auto_sharpen.py -> build/bdist.linux-x86_64/wheel/./cctbx/command_line copying build/lib/cctbx/command_line/subgroups.py -> build/bdist.linux-x86_64/wheel/./cctbx/command_line copying build/lib/cctbx/command_line/find_reticular_twin_laws.py -> build/bdist.linux-x86_64/wheel/./cctbx/command_line copying build/lib/cctbx/command_line/structure_factor_timings.py -> build/bdist.linux-x86_64/wheel/./cctbx/command_line copying build/lib/cctbx/command_line/wavelength_units.py -> build/bdist.linux-x86_64/wheel/./cctbx/command_line copying build/lib/cctbx/command_line/version.py -> build/bdist.linux-x86_64/wheel/./cctbx/command_line creating build/bdist.linux-x86_64/wheel/cctbx/adp_restraints copying build/lib/cctbx/adp_restraints/energies.py -> build/bdist.linux-x86_64/wheel/./cctbx/adp_restraints copying build/lib/cctbx/adp_restraints/flags.py -> build/bdist.linux-x86_64/wheel/./cctbx/adp_restraints copying build/lib/cctbx/adp_restraints/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/adp_restraints copying build/lib/cctbx/adp_restraints/tst_ext.py -> build/bdist.linux-x86_64/wheel/./cctbx/adp_restraints creating build/bdist.linux-x86_64/wheel/cctbx/examples copying build/lib/cctbx/examples/site_symmetry_table.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/tst_structure_factor_derivatives_4.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/phase_o_phrenia.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/unit_cell_minimizers.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples creating build/bdist.linux-x86_64/wheel/cctbx/examples/structure_factor_calculus copying build/lib/cctbx/examples/structure_factor_calculus/site_derivatives.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples/structure_factor_calculus copying build/lib/cctbx/examples/structure_factor_calculus/sites_derivatives.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples/structure_factor_calculus copying build/lib/cctbx/examples/structure_factor_calculus/u_star_derivatives.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples/structure_factor_calculus copying build/lib/cctbx/examples/structure_factor_calculus/sites_least_squares_derivatives.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples/structure_factor_calculus copying build/lib/cctbx/examples/structure_factor_calculus/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples/structure_factor_calculus copying build/lib/cctbx/examples/lebedev_2005_perturbation.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/miller_transform.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/tst_structure_factor_derivatives_2.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/hirshfeld_test.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/g_exp_i_partial_derivatives.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/structure_factor_derivatives_4.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/structure_factor_derivatives_2.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/symops_530.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/exp_i_alpha_derivatives.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/analyze_adp.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/space_group_matrices.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/list_non_principal_continuous_shifts.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/structure_factor_derivatives_3.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/le_page_1982_vs_lebedev_2005.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/sub_group_graph.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/getting_started.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/cr2o3_consistency_checks.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/convert_ccp4_symop_lib.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/fft_map_electron_density_around_atom.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/find_distances_using_cpp_objects.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/space_subgroups.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/reduced_cell_two_folds.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/tst_structure_factor_derivatives.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/location_part.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/random_puckers.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/tst_exp_i_alpha_derivatives.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/find_sys_abs_equiv_space_groups.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/g_exp_i_alpha_derivatives.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/unit_cell_refinement.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/neutron_structure_factors.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/trigonal_r_vs_tetragonal_i.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/tst_space_subgroups.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/tst_g_exp_i_alpha_derivatives.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples creating build/bdist.linux-x86_64/wheel/cctbx/examples/merging copying build/lib/cctbx/examples/merging/data_utilities.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples/merging copying build/lib/cctbx/examples/merging/show_results.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples/merging creating build/bdist.linux-x86_64/wheel/cctbx/examples/merging/samosa copying build/lib/cctbx/examples/merging/samosa/scale.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples/merging/samosa copying build/lib/cctbx/examples/merging/samosa/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples/merging/samosa copying build/lib/cctbx/examples/merging/samosa/per_lattice_postrefinement.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples/merging/samosa copying build/lib/cctbx/examples/merging/samosa/join.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples/merging/samosa copying build/lib/cctbx/examples/merging/sigma_correction.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples/merging copying build/lib/cctbx/examples/merging/test_cc_half.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples/merging copying build/lib/cctbx/examples/merging/data_subset.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples/merging copying build/lib/cctbx/examples/merging/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples/merging copying build/lib/cctbx/examples/merging/tst_permutations.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples/merging copying build/lib/cctbx/examples/merging/test_levenberg_sparse.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples/merging copying build/lib/cctbx/examples/merging/task4.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples/merging copying build/lib/cctbx/examples/merging/test1.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples/merging copying build/lib/cctbx/examples/maximum_subgroups.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/miller_common_sets.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/structure_factor_derivatives.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/f_model_example.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/adp_symmetry_constraints.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/map_skewness.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/change_hand_p31.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/quartz_structure.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/site_symmetry_constraints.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/cr2o3_primitive_cell.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/tst_structure_factor_derivatives_3.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/steve_collins.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/all_axes.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/ccp4_map.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/tst_phase_o_phrenia.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/random_f_calc.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/examples/view_fft_map.py -> build/bdist.linux-x86_64/wheel/./cctbx/examples copying build/lib/cctbx/run_examples.py -> build/bdist.linux-x86_64/wheel/./cctbx creating build/bdist.linux-x86_64/wheel/cctbx/development copying build/lib/cctbx/development/github.py -> build/bdist.linux-x86_64/wheel/./cctbx/development copying build/lib/cctbx/development/fmt_utils.py -> build/bdist.linux-x86_64/wheel/./cctbx/development copying build/lib/cctbx/development/create_models_or_maps.py -> build/bdist.linux-x86_64/wheel/./cctbx/development copying build/lib/cctbx/development/cns_density_modification.py -> build/bdist.linux-x86_64/wheel/./cctbx/development copying build/lib/cctbx/development/direct_or_fft.py -> build/bdist.linux-x86_64/wheel/./cctbx/development copying build/lib/cctbx/development/space_group_option_parser.py -> build/bdist.linux-x86_64/wheel/./cctbx/development copying build/lib/cctbx/development/electron_density_sampling.py -> build/bdist.linux-x86_64/wheel/./cctbx/development copying build/lib/cctbx/development/run_shelx.py -> build/bdist.linux-x86_64/wheel/./cctbx/development copying build/lib/cctbx/development/approx_amplitude_vs_resolution.py -> build/bdist.linux-x86_64/wheel/./cctbx/development copying build/lib/cctbx/development/random_structure.py -> build/bdist.linux-x86_64/wheel/./cctbx/development copying build/lib/cctbx/development/tst_cns_epsilon.py -> build/bdist.linux-x86_64/wheel/./cctbx/development copying build/lib/cctbx/development/tst_cns_hl.py -> build/bdist.linux-x86_64/wheel/./cctbx/development copying build/lib/cctbx/development/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/development copying build/lib/cctbx/development/make_cns_input.py -> build/bdist.linux-x86_64/wheel/./cctbx/development copying build/lib/cctbx/development/make_settings.py -> build/bdist.linux-x86_64/wheel/./cctbx/development copying build/lib/cctbx/development/structure_factor_utils.py -> build/bdist.linux-x86_64/wheel/./cctbx/development copying build/lib/cctbx/development/run_shelx76.py -> build/bdist.linux-x86_64/wheel/./cctbx/development copying build/lib/cctbx/development/debug_utils.py -> build/bdist.linux-x86_64/wheel/./cctbx/development copying build/lib/cctbx/anharmonic.py -> build/bdist.linux-x86_64/wheel/./cctbx copying build/lib/cctbx/french_wilson.py -> build/bdist.linux-x86_64/wheel/./cctbx creating build/bdist.linux-x86_64/wheel/cctbx/masks copying build/lib/cctbx/masks/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/masks copying build/lib/cctbx/math_module.py -> build/bdist.linux-x86_64/wheel/./cctbx copying build/lib/cctbx/multipolar.py -> build/bdist.linux-x86_64/wheel/./cctbx copying build/lib/cctbx/euclidean_model_matching.py -> build/bdist.linux-x86_64/wheel/./cctbx creating build/bdist.linux-x86_64/wheel/cctbx/geometry copying build/lib/cctbx/geometry/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/geometry creating build/bdist.linux-x86_64/wheel/cctbx/array_family copying build/lib/cctbx/array_family/flex.py -> build/bdist.linux-x86_64/wheel/./cctbx/array_family copying build/lib/cctbx/array_family/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/array_family creating build/bdist.linux-x86_64/wheel/cctbx/covariance copying build/lib/cctbx/covariance/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/covariance creating build/bdist.linux-x86_64/wheel/cctbx/crystal copying build/lib/cctbx/crystal/find_best_cell.py -> build/bdist.linux-x86_64/wheel/./cctbx/crystal copying build/lib/cctbx/crystal/super_cell.py -> build/bdist.linux-x86_64/wheel/./cctbx/crystal copying build/lib/cctbx/crystal/tst_distance_based_connectivity.py -> build/bdist.linux-x86_64/wheel/./cctbx/crystal copying build/lib/cctbx/crystal/tst_super_cell.py -> build/bdist.linux-x86_64/wheel/./cctbx/crystal copying build/lib/cctbx/crystal/direct_space_asu.py -> build/bdist.linux-x86_64/wheel/./cctbx/crystal copying build/lib/cctbx/crystal/reindex.py -> build/bdist.linux-x86_64/wheel/./cctbx/crystal copying build/lib/cctbx/crystal/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/crystal copying build/lib/cctbx/crystal/coordination_sequences.py -> build/bdist.linux-x86_64/wheel/./cctbx/crystal copying build/lib/cctbx/crystal/burzlaff_zimmermann_dewolff.py -> build/bdist.linux-x86_64/wheel/./cctbx/crystal copying build/lib/cctbx/crystal/distance_based_connectivity.py -> build/bdist.linux-x86_64/wheel/./cctbx/crystal copying build/lib/cctbx/crystal/close_packing.py -> build/bdist.linux-x86_64/wheel/./cctbx/crystal copying build/lib/cctbx/crystal/tst_ext.py -> build/bdist.linux-x86_64/wheel/./cctbx/crystal creating build/bdist.linux-x86_64/wheel/cctbx/source_generators copying build/lib/cctbx/source_generators/flex_fwd_h.py -> build/bdist.linux-x86_64/wheel/./cctbx/source_generators copying build/lib/cctbx/source_generators/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/source_generators creating build/bdist.linux-x86_64/wheel/cctbx/source_generators/eltbx copying build/lib/cctbx/source_generators/eltbx/generate_henke_cpp.py -> build/bdist.linux-x86_64/wheel/./cctbx/source_generators/eltbx copying build/lib/cctbx/source_generators/eltbx/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/source_generators/eltbx copying build/lib/cctbx/source_generators/eltbx/generate_sasaki_cpp.py -> build/bdist.linux-x86_64/wheel/./cctbx/source_generators/eltbx creating build/bdist.linux-x86_64/wheel/cctbx/regression copying build/lib/cctbx/regression/tst_mem_2.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_maptbx_box.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_refine_xray_curvs.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_sgtbx_special_op_simplifier.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_reflection_statistics.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_french_wilson.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_miller_statistics.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_triplet_generator.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_sgtbx.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_show_cosets.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_fast_nv1995.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_xray_minimization.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_sgtbx_lattice_symmetry.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_sgtbx_subgroups.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_maptbx_structure_factors.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_loc_res.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_weighting_schemes.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_sampled_model_density.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_wavelength_units.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_r_free_utils.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_miller_merge_equivalents.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_geometry_restraints.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_create_models_or_maps.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_crystal.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_coordination_sequences.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_change_basis.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_amplitude_normalisation.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_mem.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_miller.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_itvb_2001_table_a1427_hall_symbols.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_twin_target.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_geometry_restraints_2.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_crystal_asu_clusters.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_miller_data_manipulation.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_grm_modifications.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_grouped_data.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_f_model.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_adp_aniso_restraints.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_krivy_gruber.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_wilson_plot.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_xray_fast_gradients.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_pair_asu_table.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_space_group_type_tidy_cb_op_t.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_xray_minimization_failure.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_diffuse.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_statistics_graphs.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_crystal_close_packing.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_geometry_restraints_lbfgs.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_map_weights_for_symmetry_summation.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_adp_constraints.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_direct_scaling.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_adp_constraints_cartesian.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_fourier_transform_real_part_at_x.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_map_is_periodic.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_reciprocal_space_asu.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_pointgroup_tools.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_sphericity.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_grm_pickling.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_xray_derivatives.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_grm_modifications_rm.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_miller_fft_map.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_find_best_cell.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_sf_low_res_accuracy.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_sgtbx_harker.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_miller_double_step_filtration.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_connectivity.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_maptbx_mask.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_emma.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_sgtbx_site_constraints.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_expand_to_p1.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_niggli_reduction_cpp.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_sgtbx_tidy_pickling.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_web_change_basis.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_fcalc_fft_stability.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_prepare_map_for_docking.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_connectivity_allsym.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_sgtbx_denominators.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_miller_lookup_utils.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_direct_space_asu.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_math_module.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_xray_target_functors.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression copying build/lib/cctbx/regression/tst_xray.py -> build/bdist.linux-x86_64/wheel/./cctbx/regression creating build/bdist.linux-x86_64/wheel/cctbx/geometry_restraints copying build/lib/cctbx/geometry_restraints/base_geometry.py -> build/bdist.linux-x86_64/wheel/./cctbx/geometry_restraints copying build/lib/cctbx/geometry_restraints/tst_process_nonbonded_proxies.py -> build/bdist.linux-x86_64/wheel/./cctbx/geometry_restraints copying build/lib/cctbx/geometry_restraints/process_nonbonded_proxies.py -> build/bdist.linux-x86_64/wheel/./cctbx/geometry_restraints copying build/lib/cctbx/geometry_restraints/energies.py -> build/bdist.linux-x86_64/wheel/./cctbx/geometry_restraints copying build/lib/cctbx/geometry_restraints/tst_motif.py -> build/bdist.linux-x86_64/wheel/./cctbx/geometry_restraints copying build/lib/cctbx/geometry_restraints/manager.py -> build/bdist.linux-x86_64/wheel/./cctbx/geometry_restraints copying build/lib/cctbx/geometry_restraints/standard_cif_links.py -> build/bdist.linux-x86_64/wheel/./cctbx/geometry_restraints copying build/lib/cctbx/geometry_restraints/lbfgs.py -> build/bdist.linux-x86_64/wheel/./cctbx/geometry_restraints copying build/lib/cctbx/geometry_restraints/linking_class.py -> build/bdist.linux-x86_64/wheel/./cctbx/geometry_restraints copying build/lib/cctbx/geometry_restraints/flags.py -> build/bdist.linux-x86_64/wheel/./cctbx/geometry_restraints copying build/lib/cctbx/geometry_restraints/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/geometry_restraints copying build/lib/cctbx/geometry_restraints/tst_angle_derivs.py -> build/bdist.linux-x86_64/wheel/./cctbx/geometry_restraints copying build/lib/cctbx/geometry_restraints/auto_linking_types.py -> build/bdist.linux-x86_64/wheel/./cctbx/geometry_restraints copying build/lib/cctbx/geometry_restraints/tst_proxy_registry.py -> build/bdist.linux-x86_64/wheel/./cctbx/geometry_restraints copying build/lib/cctbx/geometry_restraints/tst_ext.py -> build/bdist.linux-x86_64/wheel/./cctbx/geometry_restraints copying build/lib/cctbx/geometry_restraints/distance_least_squares.py -> build/bdist.linux-x86_64/wheel/./cctbx/geometry_restraints creating build/bdist.linux-x86_64/wheel/cctbx/omz copying build/lib/cctbx/omz/cod_refine.py -> build/bdist.linux-x86_64/wheel/./cctbx/omz copying build/lib/cctbx/omz/cod_select_and_pickle.py -> build/bdist.linux-x86_64/wheel/./cctbx/omz copying build/lib/cctbx/omz/eval_iso_vs_refined.py -> build/bdist.linux-x86_64/wheel/./cctbx/omz copying build/lib/cctbx/omz/pdb_dev.py -> build/bdist.linux-x86_64/wheel/./cctbx/omz copying build/lib/cctbx/omz/tst_dev.py -> build/bdist.linux-x86_64/wheel/./cctbx/omz copying build/lib/cctbx/omz/bfgs.py -> build/bdist.linux-x86_64/wheel/./cctbx/omz copying build/lib/cctbx/omz/cif_refine.py -> build/bdist.linux-x86_64/wheel/./cctbx/omz copying build/lib/cctbx/omz/dev.py -> build/bdist.linux-x86_64/wheel/./cctbx/omz copying build/lib/cctbx/omz/tst_bfgs.py -> build/bdist.linux-x86_64/wheel/./cctbx/omz copying build/lib/cctbx/omz/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/omz copying build/lib/cctbx/omz/tardy_adaptor.py -> build/bdist.linux-x86_64/wheel/./cctbx/omz copying build/lib/cctbx/crystal_orientation.py -> build/bdist.linux-x86_64/wheel/./cctbx copying build/lib/cctbx/dmtbx.py -> build/bdist.linux-x86_64/wheel/./cctbx creating build/bdist.linux-x86_64/wheel/cctbx/neutron copying build/lib/cctbx/neutron/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/neutron creating build/bdist.linux-x86_64/wheel/cctbx/merging copying build/lib/cctbx/merging/brehm_diederichs.py -> build/bdist.linux-x86_64/wheel/./cctbx/merging copying build/lib/cctbx/merging/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/merging creating build/bdist.linux-x86_64/wheel/cctbx/uctbx copying build/lib/cctbx/uctbx/reduction_base.py -> build/bdist.linux-x86_64/wheel/./cctbx/uctbx copying build/lib/cctbx/uctbx/gruber_1973.py -> build/bdist.linux-x86_64/wheel/./cctbx/uctbx copying build/lib/cctbx/uctbx/gruber_1973_table_1.py -> build/bdist.linux-x86_64/wheel/./cctbx/uctbx copying build/lib/cctbx/uctbx/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/uctbx creating build/bdist.linux-x86_64/wheel/cctbx/uctbx/determine_unit_cell copying build/lib/cctbx/uctbx/determine_unit_cell/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/uctbx/determine_unit_cell copying build/lib/cctbx/uctbx/krivy_gruber_1976.py -> build/bdist.linux-x86_64/wheel/./cctbx/uctbx creating build/bdist.linux-x86_64/wheel/cctbx/miller copying build/lib/cctbx/miller/tst_map_to_asu_isym.py -> build/bdist.linux-x86_64/wheel/./cctbx/miller copying build/lib/cctbx/miller/reindexing.py -> build/bdist.linux-x86_64/wheel/./cctbx/miller copying build/lib/cctbx/miller/display.py -> build/bdist.linux-x86_64/wheel/./cctbx/miller copying build/lib/cctbx/miller/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/miller copying build/lib/cctbx/miller/tst_reindexing.py -> build/bdist.linux-x86_64/wheel/./cctbx/miller creating build/bdist.linux-x86_64/wheel/cctbx/macro_mol copying build/lib/cctbx/macro_mol/rotation_parameters.py -> build/bdist.linux-x86_64/wheel/./cctbx/macro_mol copying build/lib/cctbx/macro_mol/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/macro_mol copying build/lib/cctbx/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx creating build/bdist.linux-x86_64/wheel/cctbx/maptbx copying build/lib/cctbx/maptbx/resolution_from_map_and_model.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx copying build/lib/cctbx/maptbx/tst_mask.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx copying build/lib/cctbx/maptbx/tst_atom_curves.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx copying build/lib/cctbx/maptbx/tst_loft.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx copying build/lib/cctbx/maptbx/tst_atom_radius_as_central_peak_width.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx copying build/lib/cctbx/maptbx/prepare_map_for_docking.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx copying build/lib/cctbx/maptbx/mask.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx copying build/lib/cctbx/maptbx/tst_target_and_gradients.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx copying build/lib/cctbx/maptbx/tst_peak_volume_estimate.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx copying build/lib/cctbx/maptbx/tst_map_peak_3d_as_2d.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx copying build/lib/cctbx/maptbx/minimization.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx copying build/lib/cctbx/maptbx/map_symmetry.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx copying build/lib/cctbx/maptbx/tst_real_space_refinement_simple.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx copying build/lib/cctbx/maptbx/tst_interpolation_2.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx copying build/lib/cctbx/maptbx/mem.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx copying build/lib/cctbx/maptbx/prepare_map_for_refinement.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx copying build/lib/cctbx/maptbx/refine_sharpening.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx copying build/lib/cctbx/maptbx/tst_resolution_from_map_and_model.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx copying build/lib/cctbx/maptbx/qscore.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx copying build/lib/cctbx/maptbx/tst_asymmetric_map.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx copying build/lib/cctbx/maptbx/segment_and_split_map.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx copying build/lib/cctbx/maptbx/tst_ccp.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx copying build/lib/cctbx/maptbx/box.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx copying build/lib/cctbx/maptbx/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx copying build/lib/cctbx/maptbx/auto_sharpen.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx copying build/lib/cctbx/maptbx/tst_bcr.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx copying build/lib/cctbx/maptbx/fsc_curve.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx copying build/lib/cctbx/maptbx/refine_scales_errors.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx copying build/lib/cctbx/maptbx/real_space_refinement_simple.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx creating build/bdist.linux-x86_64/wheel/cctbx/maptbx/bcr copying build/lib/cctbx/maptbx/bcr/bcr.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx/bcr copying build/lib/cctbx/maptbx/bcr/tst_qmap_02.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx/bcr copying build/lib/cctbx/maptbx/bcr/tst_example.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx/bcr copying build/lib/cctbx/maptbx/bcr/tst_vrm2.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx/bcr copying build/lib/cctbx/maptbx/bcr/compute_tables.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx/bcr copying build/lib/cctbx/maptbx/bcr/qmap.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx/bcr copying build/lib/cctbx/maptbx/bcr/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx/bcr copying build/lib/cctbx/maptbx/bcr/tst_two_atoms.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx/bcr copying build/lib/cctbx/maptbx/bcr/tst_vrm.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx/bcr copying build/lib/cctbx/maptbx/bcr/tst_table.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx/bcr copying build/lib/cctbx/maptbx/bcr/tst_adp_refine.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx/bcr copying build/lib/cctbx/maptbx/tst_interpolation.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx copying build/lib/cctbx/maptbx/tst_qscore.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx copying build/lib/cctbx/maptbx/tst_get_percentile_cutoffs.py -> build/bdist.linux-x86_64/wheel/./cctbx/maptbx copying build/lib/cctbx/run_tests.py -> build/bdist.linux-x86_64/wheel/./cctbx creating build/bdist.linux-x86_64/wheel/cctbx/web copying build/lib/cctbx/web/phase_o_phrenia.py -> build/bdist.linux-x86_64/wheel/./cctbx/web copying build/lib/cctbx/web/change_hand.py -> build/bdist.linux-x86_64/wheel/./cctbx/web copying build/lib/cctbx/web/replay.py -> build/bdist.linux-x86_64/wheel/./cctbx/web copying build/lib/cctbx/web/cgi_utils.py -> build/bdist.linux-x86_64/wheel/./cctbx/web creating build/bdist.linux-x86_64/wheel/cctbx/web/asu_gallery copying build/lib/cctbx/web/asu_gallery/jv_index.py -> build/bdist.linux-x86_64/wheel/./cctbx/web/asu_gallery copying build/lib/cctbx/web/asu_gallery/jv_asu.py -> build/bdist.linux-x86_64/wheel/./cctbx/web/asu_gallery copying build/lib/cctbx/web/asu_gallery/jvx.py -> build/bdist.linux-x86_64/wheel/./cctbx/web/asu_gallery copying build/lib/cctbx/web/asu_gallery/guide_to_notation.py -> build/bdist.linux-x86_64/wheel/./cctbx/web/asu_gallery copying build/lib/cctbx/web/asu_gallery/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/web/asu_gallery copying build/lib/cctbx/web/asu_gallery/web_links.py -> build/bdist.linux-x86_64/wheel/./cctbx/web/asu_gallery copying build/lib/cctbx/web/iotbx_cif_validate.py -> build/bdist.linux-x86_64/wheel/./cctbx/web copying build/lib/cctbx/web/structure_factors_pdb.py -> build/bdist.linux-x86_64/wheel/./cctbx/web copying build/lib/cctbx/web/frac_cart.py -> build/bdist.linux-x86_64/wheel/./cctbx/web copying build/lib/cctbx/web/explore_symmetry.py -> build/bdist.linux-x86_64/wheel/./cctbx/web copying build/lib/cctbx/web/lattice_symmetry.py -> build/bdist.linux-x86_64/wheel/./cctbx/web copying build/lib/cctbx/web/structure_factors.py -> build/bdist.linux-x86_64/wheel/./cctbx/web copying build/lib/cctbx/web/shelx.py -> build/bdist.linux-x86_64/wheel/./cctbx/web copying build/lib/cctbx/web/browse_settings.py -> build/bdist.linux-x86_64/wheel/./cctbx/web copying build/lib/cctbx/web/multiple_cell.py -> build/bdist.linux-x86_64/wheel/./cctbx/web copying build/lib/cctbx/web/change_setting.py -> build/bdist.linux-x86_64/wheel/./cctbx/web copying build/lib/cctbx/web/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/web copying build/lib/cctbx/web/libtbx_help.py -> build/bdist.linux-x86_64/wheel/./cctbx/web copying build/lib/cctbx/web/change_basis.py -> build/bdist.linux-x86_64/wheel/./cctbx/web copying build/lib/cctbx/web/dispatcher.py -> build/bdist.linux-x86_64/wheel/./cctbx/web copying build/lib/cctbx/web/all_axes.py -> build/bdist.linux-x86_64/wheel/./cctbx/web copying build/lib/cctbx/web/emma.py -> build/bdist.linux-x86_64/wheel/./cctbx/web copying build/lib/cctbx/web/wyckoff.py -> build/bdist.linux-x86_64/wheel/./cctbx/web copying build/lib/cctbx/web/io_utils.py -> build/bdist.linux-x86_64/wheel/./cctbx/web creating build/bdist.linux-x86_64/wheel/cctbx/sgtbx copying build/lib/cctbx/sgtbx/plane_groups.py -> build/bdist.linux-x86_64/wheel/./cctbx/sgtbx copying build/lib/cctbx/sgtbx/harker.py -> build/bdist.linux-x86_64/wheel/./cctbx/sgtbx copying build/lib/cctbx/sgtbx/show_cosets.py -> build/bdist.linux-x86_64/wheel/./cctbx/sgtbx copying build/lib/cctbx/sgtbx/lattice_symmetry.py -> build/bdist.linux-x86_64/wheel/./cctbx/sgtbx copying build/lib/cctbx/sgtbx/symbol_confidence.py -> build/bdist.linux-x86_64/wheel/./cctbx/sgtbx copying build/lib/cctbx/sgtbx/reticular_twin_laws.py -> build/bdist.linux-x86_64/wheel/./cctbx/sgtbx copying build/lib/cctbx/sgtbx/sub_lattice_tools.py -> build/bdist.linux-x86_64/wheel/./cctbx/sgtbx copying build/lib/cctbx/sgtbx/sys_abs_equiv.py -> build/bdist.linux-x86_64/wheel/./cctbx/sgtbx copying build/lib/cctbx/sgtbx/bravais_types.py -> build/bdist.linux-x86_64/wheel/./cctbx/sgtbx copying build/lib/cctbx/sgtbx/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/sgtbx copying build/lib/cctbx/sgtbx/literal_description.py -> build/bdist.linux-x86_64/wheel/./cctbx/sgtbx copying build/lib/cctbx/sgtbx/subgroups.py -> build/bdist.linux-x86_64/wheel/./cctbx/sgtbx copying build/lib/cctbx/sgtbx/rational_matrices_point_groups.py -> build/bdist.linux-x86_64/wheel/./cctbx/sgtbx creating build/bdist.linux-x86_64/wheel/cctbx/sgtbx/direct_space_asu copying build/lib/cctbx/sgtbx/direct_space_asu/cut_plane.py -> build/bdist.linux-x86_64/wheel/./cctbx/sgtbx/direct_space_asu copying build/lib/cctbx/sgtbx/direct_space_asu/check_redundancies.py -> build/bdist.linux-x86_64/wheel/./cctbx/sgtbx/direct_space_asu copying build/lib/cctbx/sgtbx/direct_space_asu/facet_analysis.py -> build/bdist.linux-x86_64/wheel/./cctbx/sgtbx/direct_space_asu copying build/lib/cctbx/sgtbx/direct_space_asu/short_cuts.py -> build/bdist.linux-x86_64/wheel/./cctbx/sgtbx/direct_space_asu copying build/lib/cctbx/sgtbx/direct_space_asu/plane_group_reference_table.py -> build/bdist.linux-x86_64/wheel/./cctbx/sgtbx/direct_space_asu copying build/lib/cctbx/sgtbx/direct_space_asu/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/sgtbx/direct_space_asu creating build/bdist.linux-x86_64/wheel/cctbx/sgtbx/direct_space_asu/proto copying build/lib/cctbx/sgtbx/direct_space_asu/proto/tst_asu.py -> build/bdist.linux-x86_64/wheel/./cctbx/sgtbx/direct_space_asu/proto copying build/lib/cctbx/sgtbx/direct_space_asu/proto/generate_cpp_asu_table.py -> build/bdist.linux-x86_64/wheel/./cctbx/sgtbx/direct_space_asu/proto copying build/lib/cctbx/sgtbx/direct_space_asu/proto/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/sgtbx/direct_space_asu/proto copying build/lib/cctbx/sgtbx/direct_space_asu/reference_table.py -> build/bdist.linux-x86_64/wheel/./cctbx/sgtbx/direct_space_asu copying build/lib/cctbx/sgtbx/reticular_pg_tools.py -> build/bdist.linux-x86_64/wheel/./cctbx/sgtbx copying build/lib/cctbx/sgtbx/pointgroup_tools.py -> build/bdist.linux-x86_64/wheel/./cctbx/sgtbx copying build/lib/cctbx/sgtbx/cosets.py -> build/bdist.linux-x86_64/wheel/./cctbx/sgtbx copying build/lib/cctbx/libtbx_refresh.py -> build/bdist.linux-x86_64/wheel/./cctbx creating build/bdist.linux-x86_64/wheel/cctbx/xray creating build/bdist.linux-x86_64/wheel/cctbx/xray/observations copying build/lib/cctbx/xray/observations/tst_observations.py -> build/bdist.linux-x86_64/wheel/./cctbx/xray/observations copying build/lib/cctbx/xray/observations/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/xray/observations copying build/lib/cctbx/xray/minimization.py -> build/bdist.linux-x86_64/wheel/./cctbx/xray copying build/lib/cctbx/xray/weighting_schemes.py -> build/bdist.linux-x86_64/wheel/./cctbx/xray copying build/lib/cctbx/xray/target_functors.py -> build/bdist.linux-x86_64/wheel/./cctbx/xray copying build/lib/cctbx/xray/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/xray copying build/lib/cctbx/xray/observation_types.py -> build/bdist.linux-x86_64/wheel/./cctbx/xray copying build/lib/cctbx/xray/structure.py -> build/bdist.linux-x86_64/wheel/./cctbx/xray creating build/bdist.linux-x86_64/wheel/cctbx/xray/targets copying build/lib/cctbx/xray/targets/tst_shelxl_wght_ls.py -> build/bdist.linux-x86_64/wheel/./cctbx/xray/targets copying build/lib/cctbx/xray/targets/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/xray/targets copying build/lib/cctbx/xray/targets/tst_r1.py -> build/bdist.linux-x86_64/wheel/./cctbx/xray/targets copying build/lib/cctbx/xray/targets/r1.py -> build/bdist.linux-x86_64/wheel/./cctbx/xray/targets copying build/lib/cctbx/xray/ext.py -> build/bdist.linux-x86_64/wheel/./cctbx/xray copying build/lib/cctbx/xray/scatterer.py -> build/bdist.linux-x86_64/wheel/./cctbx/xray creating build/bdist.linux-x86_64/wheel/cctbx/xray/structure_factors copying build/lib/cctbx/xray/structure_factors/algorithm.py -> build/bdist.linux-x86_64/wheel/./cctbx/xray/structure_factors copying build/lib/cctbx/xray/structure_factors/from_scatterers.py -> build/bdist.linux-x86_64/wheel/./cctbx/xray/structure_factors copying build/lib/cctbx/xray/structure_factors/manager.py -> build/bdist.linux-x86_64/wheel/./cctbx/xray/structure_factors copying build/lib/cctbx/xray/structure_factors/gradients_base.py -> build/bdist.linux-x86_64/wheel/./cctbx/xray/structure_factors copying build/lib/cctbx/xray/structure_factors/gradients_fft.py -> build/bdist.linux-x86_64/wheel/./cctbx/xray/structure_factors copying build/lib/cctbx/xray/structure_factors/gradients_direct.py -> build/bdist.linux-x86_64/wheel/./cctbx/xray/structure_factors copying build/lib/cctbx/xray/structure_factors/from_scatterers_direct_parallel.py -> build/bdist.linux-x86_64/wheel/./cctbx/xray/structure_factors copying build/lib/cctbx/xray/structure_factors/from_scatterers_fft.py -> build/bdist.linux-x86_64/wheel/./cctbx/xray/structure_factors copying build/lib/cctbx/xray/structure_factors/gradients.py -> build/bdist.linux-x86_64/wheel/./cctbx/xray/structure_factors copying build/lib/cctbx/xray/structure_factors/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/xray/structure_factors copying build/lib/cctbx/xray/structure_factors/global_counters.py -> build/bdist.linux-x86_64/wheel/./cctbx/xray/structure_factors copying build/lib/cctbx/xray/structure_factors/from_scatterers_direct.py -> build/bdist.linux-x86_64/wheel/./cctbx/xray/structure_factors copying build/lib/cctbx/xray/structure_factors/misc.py -> build/bdist.linux-x86_64/wheel/./cctbx/xray/structure_factors copying build/lib/cctbx/xray/structure_factors/gradient_flags.py -> build/bdist.linux-x86_64/wheel/./cctbx/xray/structure_factors copying build/lib/cctbx/adptbx.py -> build/bdist.linux-x86_64/wheel/./cctbx copying build/lib/cctbx/translation_search.py -> build/bdist.linux-x86_64/wheel/./cctbx copying build/lib/cctbx/r_free_utils.py -> build/bdist.linux-x86_64/wheel/./cctbx copying build/lib/cctbx/statistics.py -> build/bdist.linux-x86_64/wheel/./cctbx copying build/lib/cctbx/symmetry_search.py -> build/bdist.linux-x86_64/wheel/./cctbx creating build/bdist.linux-x86_64/wheel/cctbx/eltbx copying build/lib/cctbx/eltbx/gaussian_fit.py -> build/bdist.linux-x86_64/wheel/./cctbx/eltbx copying build/lib/cctbx/eltbx/neutron.py -> build/bdist.linux-x86_64/wheel/./cctbx/eltbx creating build/bdist.linux-x86_64/wheel/cctbx/eltbx/development copying build/lib/cctbx/eltbx/development/rez_rez_grant.py -> build/bdist.linux-x86_64/wheel/./cctbx/eltbx/development copying build/lib/cctbx/eltbx/development/kissel_io.py -> build/bdist.linux-x86_64/wheel/./cctbx/eltbx/development copying build/lib/cctbx/eltbx/development/kissel_fits.py -> build/bdist.linux-x86_64/wheel/./cctbx/eltbx/development copying build/lib/cctbx/eltbx/development/itvc_fits.py -> build/bdist.linux-x86_64/wheel/./cctbx/eltbx/development copying build/lib/cctbx/eltbx/development/create_n_gaussian_raw_cpp.py -> build/bdist.linux-x86_64/wheel/./cctbx/eltbx/development copying build/lib/cctbx/eltbx/development/combine_fits.py -> build/bdist.linux-x86_64/wheel/./cctbx/eltbx/development copying build/lib/cctbx/eltbx/development/format_gaussian_fits.py -> build/bdist.linux-x86_64/wheel/./cctbx/eltbx/development copying build/lib/cctbx/eltbx/development/itvc_section61_io.py -> build/bdist.linux-x86_64/wheel/./cctbx/eltbx/development copying build/lib/cctbx/eltbx/development/itvc_approx.py -> build/bdist.linux-x86_64/wheel/./cctbx/eltbx/development copying build/lib/cctbx/eltbx/development/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/eltbx/development copying build/lib/cctbx/eltbx/development/e_scattering_plots.py -> build/bdist.linux-x86_64/wheel/./cctbx/eltbx/development copying build/lib/cctbx/eltbx/development/itvc_kissel.py -> build/bdist.linux-x86_64/wheel/./cctbx/eltbx/development copying build/lib/cctbx/eltbx/development/itvc_cross_validation.py -> build/bdist.linux-x86_64/wheel/./cctbx/eltbx/development copying build/lib/cctbx/eltbx/development/hydrogen_plots.py -> build/bdist.linux-x86_64/wheel/./cctbx/eltbx/development copying build/lib/cctbx/eltbx/covalent_radii.py -> build/bdist.linux-x86_64/wheel/./cctbx/eltbx copying build/lib/cctbx/eltbx/formula.py -> build/bdist.linux-x86_64/wheel/./cctbx/eltbx copying build/lib/cctbx/eltbx/icsd_radii.py -> build/bdist.linux-x86_64/wheel/./cctbx/eltbx creating build/bdist.linux-x86_64/wheel/cctbx/eltbx/xray_scattering copying build/lib/cctbx/eltbx/xray_scattering/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/eltbx/xray_scattering copying build/lib/cctbx/eltbx/wavelengths.py -> build/bdist.linux-x86_64/wheel/./cctbx/eltbx copying build/lib/cctbx/eltbx/chemical_elements.py -> build/bdist.linux-x86_64/wheel/./cctbx/eltbx copying build/lib/cctbx/eltbx/attenuation_coefficient.py -> build/bdist.linux-x86_64/wheel/./cctbx/eltbx copying build/lib/cctbx/eltbx/fp_fdp.py -> build/bdist.linux-x86_64/wheel/./cctbx/eltbx copying build/lib/cctbx/eltbx/henke.py -> build/bdist.linux-x86_64/wheel/./cctbx/eltbx copying build/lib/cctbx/eltbx/tiny_pse.py -> build/bdist.linux-x86_64/wheel/./cctbx/eltbx copying build/lib/cctbx/eltbx/e_scattering.py -> build/bdist.linux-x86_64/wheel/./cctbx/eltbx copying build/lib/cctbx/eltbx/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx/eltbx copying build/lib/cctbx/eltbx/sasaki.py -> build/bdist.linux-x86_64/wheel/./cctbx/eltbx copying build/lib/cctbx/eltbx/distance_based_connectivity.py -> build/bdist.linux-x86_64/wheel/./cctbx/eltbx copying build/lib/cctbx/eltbx/van_der_waals_radii.py -> build/bdist.linux-x86_64/wheel/./cctbx/eltbx copying build/lib/cctbx/eltbx/read_custom_scattering_dict.py -> build/bdist.linux-x86_64/wheel/./cctbx/eltbx creating build/bdist.linux-x86_64/wheel/cootbx copying build/lib/cootbx/hydrogens_button.py -> build/bdist.linux-x86_64/wheel/./cootbx copying build/lib/cootbx/watch_file.py -> build/bdist.linux-x86_64/wheel/./cootbx copying build/lib/cootbx/simple_zoom_list.py -> build/bdist.linux-x86_64/wheel/./cootbx copying build/lib/cootbx/interactive_edit.py -> build/bdist.linux-x86_64/wheel/./cootbx copying build/lib/cootbx/xmlrpc_server.py -> build/bdist.linux-x86_64/wheel/./cootbx copying build/lib/cootbx/validation_lists.py -> build/bdist.linux-x86_64/wheel/./cootbx copying build/lib/cootbx/__init__.py -> build/bdist.linux-x86_64/wheel/./cootbx copying build/lib/cootbx/ligand_checklist.py -> build/bdist.linux-x86_64/wheel/./cootbx copying build/lib/cootbx/view_refinement.py -> build/bdist.linux-x86_64/wheel/./cootbx creating build/bdist.linux-x86_64/wheel/ccp4io_adaptbx copying build/lib/ccp4io_adaptbx/copy_files.py -> build/bdist.linux-x86_64/wheel/./ccp4io_adaptbx copying build/lib/ccp4io_adaptbx/__init__.py -> build/bdist.linux-x86_64/wheel/./ccp4io_adaptbx copying build/lib/ccp4io_adaptbx/tst.py -> build/bdist.linux-x86_64/wheel/./ccp4io_adaptbx creating build/bdist.linux-x86_64/wheel/libtbx copying build/lib/libtbx/configure.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/cluster.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/find_reference_cycles.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/dlite.py -> build/bdist.linux-x86_64/wheel/./libtbx creating build/bdist.linux-x86_64/wheel/libtbx/command_line copying build/lib/libtbx/command_line/find_untested.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/show_full_command_path.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/printenv.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/show_dist_paths.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/find_reserved_names.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/show_but_no_repr.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/find_in_repositories.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/create_installer.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/assert_stdin.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/clean_clutter.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/create_install_script_bat.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/show_env.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/run_tests_parallel.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/phil.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/resource_monitor_plot.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/assert_stdin_ends_with.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/bootstrap.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/sge_available_slots.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/dtrace.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/wait_for_file.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/remove_unused_imports.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/show_module_dependencies.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/check_libcpp.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/seconds_since_the_epoch.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/show_host_and_user.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/list_modules.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/line_count.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/easy_qsub.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/assert_line_count.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/show_lib_path.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/list_source_files_sorted_by_size.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/assert_stdin_contains_strings.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/add_docstrings_with_ai.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/reindent.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/any2unix.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/show_date_and_time.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/clear_paths.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/find_clutter.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/bundle_as_exe.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/assert_not_show_diff.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/start_binary_bundle.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/find_under_build.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/start_process.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/create_mac_app.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/import_all_python.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/show_number_of_processors.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/remote_processing.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/show_repository_paths.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/show_numeric_version.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/help.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/show_include_paths.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/show_build_path.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/parallel_simple.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/ipython_shell_start.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/find_unused_imports.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/create_windows_exe.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/env_run.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/show_python_dependencies.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/nequal.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/show_commands.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/show_build_options.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/show_all_on_path.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/analyse_code_comments.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/find_pdb_mmcif_problems.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/install.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/show_pythonpath.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/find_old_style_classes.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/sphinx_build.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/show_python_sys_executable.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/epydoc_run.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/__init__.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/show_numpy_version.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/find_unused_imports_crude.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/run_pickled_function.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/scons.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/show_tests.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/show_bin_path.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/raise_exception_for_testing.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/remove_tree.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/py_compile_all.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/show_variable_names.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/find_files.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/create_cctbx_bundle_for_installer.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/show_environ_usage.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/create_unzipsfx.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/make_sphinx_html.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/git_avoid_merges.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/cctbx_chunk.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/create_selfx.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/make_dist.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/extract_code_from_txt.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/install_conda.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/prime_factors_of.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/list_files.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/path_utility.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/import_all_ext.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line copying build/lib/libtbx/command_line/sge_qstat_counts.py -> build/bdist.linux-x86_64/wheel/./libtbx/command_line creating build/bdist.linux-x86_64/wheel/libtbx/development copying build/lib/libtbx/development/timers.py -> build/bdist.linux-x86_64/wheel/./libtbx/development copying build/lib/libtbx/development/__init__.py -> build/bdist.linux-x86_64/wheel/./libtbx/development copying build/lib/libtbx/development/xcode_build_phase.py -> build/bdist.linux-x86_64/wheel/./libtbx/development copying build/lib/libtbx/development/except_Exception.py -> build/bdist.linux-x86_64/wheel/./libtbx/development copying build/lib/libtbx/tst_version.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/tst_containers.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/citations.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/resource_monitor.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/tst_binary_search.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/smart_open.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/thread_utils.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/easy_run.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/word_index_generator.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/xmlrpc_utils.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/clusterTests.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/code_analysis.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/path.py -> build/bdist.linux-x86_64/wheel/./libtbx creating build/bdist.linux-x86_64/wheel/libtbx/langchain creating build/bdist.linux-x86_64/wheel/libtbx/langchain/knowledge copying build/lib/libtbx/langchain/knowledge/phenix_programs.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/knowledge copying build/lib/libtbx/langchain/knowledge/yaml_loader.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/knowledge copying build/lib/libtbx/langchain/knowledge/summary_display.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/knowledge copying build/lib/libtbx/langchain/knowledge/thinking_prompts.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/knowledge copying build/lib/libtbx/langchain/knowledge/prompts_hybrid.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/knowledge copying build/lib/libtbx/langchain/knowledge/html_report_template.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/knowledge copying build/lib/libtbx/langchain/knowledge/plan_schema.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/knowledge copying build/lib/libtbx/langchain/knowledge/plan_template_loader.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/knowledge copying build/lib/libtbx/langchain/knowledge/metric_patterns.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/knowledge copying build/lib/libtbx/langchain/knowledge/kb_loader.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/knowledge copying build/lib/libtbx/langchain/knowledge/__init__.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/knowledge copying build/lib/libtbx/langchain/knowledge/api_schema.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/knowledge copying build/lib/libtbx/langchain/knowledge/prompts.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/knowledge copying build/lib/libtbx/langchain/knowledge/explanation_prompts.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/knowledge copying build/lib/libtbx/langchain/knowledge/program_registration.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/knowledge creating build/bdist.linux-x86_64/wheel/libtbx/langchain/commands copying build/lib/libtbx/langchain/commands/base.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/commands copying build/lib/libtbx/langchain/commands/__init__.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/commands creating build/bdist.linux-x86_64/wheel/libtbx/langchain/examples copying build/lib/libtbx/langchain/examples/__init__.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/examples copying build/lib/libtbx/langchain/phenix_knowledge.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain copying build/lib/libtbx/langchain/run_inspect_db.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain creating build/bdist.linux-x86_64/wheel/libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/perceive_checks.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/graph_state.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/thinking_agent.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/placement_checker.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/sanity_checker.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/command_postprocessor.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/strategy_memory.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/program_registry.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/session_tools.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/command_builder.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/event_log.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/program_validator.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/advice_preprocessor.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/rules_selector.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/metrics_analyzer.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/directive_validator.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/format_validation.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/api_client.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/gate_evaluator.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/metric_evaluator.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/generate_logic_doc.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/tst_agent_enhancements.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/error_analyzer.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/display_data_model.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/generate_safety_docs.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/file_utils.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/event_formatter.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/planner.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/session.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/error_classifier.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/graph_nodes.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/plan_generator.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/transport.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/dry_run_manager.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/template_builder.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/docs_tools.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/structure_model.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/intent_classifier.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/validation_inspector.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/validation_history.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/directive_extractor.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/config_loader.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/yaml_tools.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/file_metadata.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/kb_tags.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/memory.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/rate_limit_handler.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/__init__.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/workflow_engine.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/failure_diagnoser.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/hypothesis_evaluator.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/phil_validator.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/log_section_extractor.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/phenix_utils.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/graph.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/pattern_manager.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/contract.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/nl_to_phil.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/best_files_tracker.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/utils.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent copying build/lib/libtbx/langchain/agent/workflow_state.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/agent creating build/bdist.linux-x86_64/wheel/libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_api_schema.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/audit_phase_rename.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_stop_reason_prompt.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_workflow_state.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_silent_stop_abort_messages.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_new_programs.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_file_utils.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_advice_preprocessing.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_action_item_1.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_phase8_command_building.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_workflow_complete_stop.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_hardcoded_cleanup.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_langchain_tools.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_structure_model.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_best_files_tracker.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_thinking_defense.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_fix_verification.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_yaml_config.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_backward_compat.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_directive_extractor.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_program_registration.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_audit_fixes.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_history_analysis.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_sanity_checker.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_plan_generator.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_halfmap_sigmaa_inventory.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_utils.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_directive_validator.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_validate_file_overrides.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_phase3_bug5.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_yaml_tools.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_command_builder.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_pattern_manager.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_file_categorization.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_session_directives.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_plan_schema.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_v112_13_fixes.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_mtz_phases_session_blocking.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_phase4_history_flags.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_validation_history.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/test_api_keys.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_phase1_contract_gaps.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_contract_compliance.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_event_system.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_diagnosed_failure_stop.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_phase3_serialization_symmetry.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_copies_tracking.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_dry_run.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_decision_flow.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_log_extractor.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_stop_feedback_api_plan_command.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/run_all_tests.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_n_bugs.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_state_serialization.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_event_formatter_file_categories.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_error_classifier.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_old_client_compat.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_session_summary.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_directives_integration.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_metric_patterns.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_integration.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_phase2_path_consistency.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_error_analyzer.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_explanation_prompts.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_intent_classifier.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/__init__.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_phase7_routing_simulation.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_strategy_memory.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_template.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_summary_display.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_shared_code_imports.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_transport.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_docs_tools.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests creating build/bdist.linux-x86_64/wheel/libtbx/langchain/tests/integration copying build/lib/libtbx/langchain/tests/integration/__init__.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests/integration copying build/lib/libtbx/langchain/tests/tst_autosol_bugs.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_phase6_category_consumer.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_phaser_multimodel.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_phase0_static_audit.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_gate_evaluator.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_hypothesis_evaluator.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_abort_message_all_stops.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_display_data_model.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_session_tools.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_stop_reason_codes.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_phil_validation.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_perceive_stop_checks.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/analyze_tutorial_runs.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_scenario_tracer.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_mtz_crosscheck.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_stop_condition_fix.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_phase9_llm_perturbation.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_thinking_agent.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_fabricated_stop_condition.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_metrics_analyzer.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests copying build/lib/libtbx/langchain/tests/tst_phase5_error_classification.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/tests creating build/bdist.linux-x86_64/wheel/libtbx/langchain/strategies copying build/lib/libtbx/langchain/strategies/base.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/strategies copying build/lib/libtbx/langchain/strategies/__init__.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/strategies creating build/bdist.linux-x86_64/wheel/libtbx/langchain/rag copying build/lib/libtbx/langchain/rag/vector_store.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/rag copying build/lib/libtbx/langchain/rag/retriever.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/rag copying build/lib/libtbx/langchain/rag/__init__.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/rag copying build/lib/libtbx/langchain/rag/document_loader.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/rag copying build/lib/libtbx/langchain/run_query_docs.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain copying build/lib/libtbx/langchain/run_build_db.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain creating build/bdist.linux-x86_64/wheel/libtbx/langchain/analysis copying build/lib/libtbx/langchain/analysis/analyzer.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/analysis copying build/lib/libtbx/langchain/analysis/state_extractor.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/analysis copying build/lib/libtbx/langchain/analysis/log_info.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/analysis copying build/lib/libtbx/langchain/analysis/agent_session_analyzer.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/analysis copying build/lib/libtbx/langchain/analysis/__init__.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/analysis copying build/lib/libtbx/langchain/analysis/summarizer.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/analysis copying build/lib/libtbx/langchain/__init__.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain creating build/bdist.linux-x86_64/wheel/libtbx/langchain/utils copying build/lib/libtbx/langchain/utils/run_utils.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/utils copying build/lib/libtbx/langchain/utils/text_processing.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/utils copying build/lib/libtbx/langchain/utils/query.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/utils copying build/lib/libtbx/langchain/utils/__init__.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/utils creating build/bdist.linux-x86_64/wheel/libtbx/langchain/core copying build/lib/libtbx/langchain/core/types.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/core copying build/lib/libtbx/langchain/core/llm.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/core copying build/lib/libtbx/langchain/core/__init__.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/core creating build/bdist.linux-x86_64/wheel/libtbx/langchain/validation copying build/lib/libtbx/langchain/validation/phenix_refine.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/validation copying build/lib/libtbx/langchain/validation/core_validator.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/validation copying build/lib/libtbx/langchain/validation/registry.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/validation copying build/lib/libtbx/langchain/validation/base.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/validation copying build/lib/libtbx/langchain/validation/__init__.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/validation copying build/lib/libtbx/langchain/validation/mtz_utils.py -> build/bdist.linux-x86_64/wheel/./libtbx/langchain/validation copying build/lib/libtbx/console_utils.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/cli.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/file_clutter.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/math_utils.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/forward_compatibility.py -> build/bdist.linux-x86_64/wheel/./libtbx creating build/bdist.linux-x86_64/wheel/libtbx/queuing_system_utils copying build/lib/libtbx/queuing_system_utils/remote.py -> build/bdist.linux-x86_64/wheel/./libtbx/queuing_system_utils copying build/lib/libtbx/queuing_system_utils/lsf.py -> build/bdist.linux-x86_64/wheel/./libtbx/queuing_system_utils copying build/lib/libtbx/queuing_system_utils/communication.py -> build/bdist.linux-x86_64/wheel/./libtbx/queuing_system_utils creating build/bdist.linux-x86_64/wheel/libtbx/queuing_system_utils/processing copying build/lib/libtbx/queuing_system_utils/processing/polling.py -> build/bdist.linux-x86_64/wheel/./libtbx/queuing_system_utils/processing copying build/lib/libtbx/queuing_system_utils/processing/submission.py -> build/bdist.linux-x86_64/wheel/./libtbx/queuing_system_utils/processing copying build/lib/libtbx/queuing_system_utils/processing/util.py -> build/bdist.linux-x86_64/wheel/./libtbx/queuing_system_utils/processing copying build/lib/libtbx/queuing_system_utils/processing/transfer.py -> build/bdist.linux-x86_64/wheel/./libtbx/queuing_system_utils/processing copying build/lib/libtbx/queuing_system_utils/processing/__init__.py -> build/bdist.linux-x86_64/wheel/./libtbx/queuing_system_utils/processing copying build/lib/libtbx/queuing_system_utils/processing/status.py -> build/bdist.linux-x86_64/wheel/./libtbx/queuing_system_utils/processing copying build/lib/libtbx/queuing_system_utils/processing/errors.py -> build/bdist.linux-x86_64/wheel/./libtbx/queuing_system_utils/processing copying build/lib/libtbx/queuing_system_utils/looping.py -> build/bdist.linux-x86_64/wheel/./libtbx/queuing_system_utils copying build/lib/libtbx/queuing_system_utils/__init__.py -> build/bdist.linux-x86_64/wheel/./libtbx/queuing_system_utils copying build/lib/libtbx/queuing_system_utils/scheduling.py -> build/bdist.linux-x86_64/wheel/./libtbx/queuing_system_utils copying build/lib/libtbx/queuing_system_utils/pbs_utils.py -> build/bdist.linux-x86_64/wheel/./libtbx/queuing_system_utils copying build/lib/libtbx/queuing_system_utils/scheduling_helpers.py -> build/bdist.linux-x86_64/wheel/./libtbx/queuing_system_utils copying build/lib/libtbx/queuing_system_utils/tst.py -> build/bdist.linux-x86_64/wheel/./libtbx/queuing_system_utils copying build/lib/libtbx/queuing_system_utils/generic.py -> build/bdist.linux-x86_64/wheel/./libtbx/queuing_system_utils copying build/lib/libtbx/queuing_system_utils/sge_utils.py -> build/bdist.linux-x86_64/wheel/./libtbx/queuing_system_utils copying build/lib/libtbx/tst_run_tests_parallel_unique_dirs.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/assert_utils.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/progress.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/tst_str_utils.py -> build/bdist.linux-x86_64/wheel/./libtbx creating build/bdist.linux-x86_64/wheel/libtbx/sphinx copying build/lib/libtbx/sphinx/phil.py -> build/bdist.linux-x86_64/wheel/./libtbx/sphinx copying build/lib/libtbx/sphinx/pubmed.py -> build/bdist.linux-x86_64/wheel/./libtbx/sphinx copying build/lib/libtbx/sphinx/__init__.py -> build/bdist.linux-x86_64/wheel/./libtbx/sphinx copying build/lib/libtbx/sphinx/python_string.py -> build/bdist.linux-x86_64/wheel/./libtbx/sphinx copying build/lib/libtbx/tst_mahalanobis.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/complex_math.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/tst_xmlrpc_utils.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/easy_profile.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/tst_utils.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/tst_thread_utils.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/tst_citations.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/table_utils.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/clear_paths.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/simplexml.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/tst_program_template.py -> build/bdist.linux-x86_64/wheel/./libtbx creating build/bdist.linux-x86_64/wheel/libtbx/scheduling copying build/lib/libtbx/scheduling/job_scheduler.py -> build/bdist.linux-x86_64/wheel/./libtbx/scheduling copying build/lib/libtbx/scheduling/mp_handler.py -> build/bdist.linux-x86_64/wheel/./libtbx/scheduling copying build/lib/libtbx/scheduling/socket_queue.py -> build/bdist.linux-x86_64/wheel/./libtbx/scheduling copying build/lib/libtbx/scheduling/cluster_handler.py -> build/bdist.linux-x86_64/wheel/./libtbx/scheduling copying build/lib/libtbx/scheduling/parallel_for.py -> build/bdist.linux-x86_64/wheel/./libtbx/scheduling copying build/lib/libtbx/scheduling/stacktrace.py -> build/bdist.linux-x86_64/wheel/./libtbx/scheduling copying build/lib/libtbx/scheduling/mainthread.py -> build/bdist.linux-x86_64/wheel/./libtbx/scheduling copying build/lib/libtbx/scheduling/thread_handler.py -> build/bdist.linux-x86_64/wheel/./libtbx/scheduling copying build/lib/libtbx/scheduling/shared_resource.py -> build/bdist.linux-x86_64/wheel/./libtbx/scheduling copying build/lib/libtbx/scheduling/file_queue.py -> build/bdist.linux-x86_64/wheel/./libtbx/scheduling copying build/lib/libtbx/scheduling/__init__.py -> build/bdist.linux-x86_64/wheel/./libtbx/scheduling copying build/lib/libtbx/scheduling/philgen.py -> build/bdist.linux-x86_64/wheel/./libtbx/scheduling copying build/lib/libtbx/scheduling/result.py -> build/bdist.linux-x86_64/wheel/./libtbx/scheduling copying build/lib/libtbx/scheduling/process_pool.py -> build/bdist.linux-x86_64/wheel/./libtbx/scheduling copying build/lib/libtbx/tst_scheduling.py -> build/bdist.linux-x86_64/wheel/./libtbx creating build/bdist.linux-x86_64/wheel/libtbx/phil copying build/lib/libtbx/phil/interface.py -> build/bdist.linux-x86_64/wheel/./libtbx/phil copying build/lib/libtbx/phil/tst_tokenizer.py -> build/bdist.linux-x86_64/wheel/./libtbx/phil copying build/lib/libtbx/phil/gui_objects.py -> build/bdist.linux-x86_64/wheel/./libtbx/phil copying build/lib/libtbx/phil/tst_interface.py -> build/bdist.linux-x86_64/wheel/./libtbx/phil copying build/lib/libtbx/phil/tst_experimental.py -> build/bdist.linux-x86_64/wheel/./libtbx/phil copying build/lib/libtbx/phil/tokenizer.py -> build/bdist.linux-x86_64/wheel/./libtbx/phil copying build/lib/libtbx/phil/parser.py -> build/bdist.linux-x86_64/wheel/./libtbx/phil copying build/lib/libtbx/phil/__init__.py -> build/bdist.linux-x86_64/wheel/./libtbx/phil copying build/lib/libtbx/phil/experimental.py -> build/bdist.linux-x86_64/wheel/./libtbx/phil copying build/lib/libtbx/phil/command_line.py -> build/bdist.linux-x86_64/wheel/./libtbx/phil copying build/lib/libtbx/phil/tst.py -> build/bdist.linux-x86_64/wheel/./libtbx/phil copying build/lib/libtbx/objgraph.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/object_oriented_patterns.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/cpp_function_name.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/tst_fully_buffered_timeout.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/log.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/pkg_utils.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/tst_representation.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/crossmingw.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/tst_easy_pickle.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/tst_easy_mp_state.py -> build/bdist.linux-x86_64/wheel/./libtbx creating build/bdist.linux-x86_64/wheel/libtbx/bundle copying build/lib/libtbx/bundle/copy_build_libtbx.py -> build/bdist.linux-x86_64/wheel/./libtbx/bundle copying build/lib/libtbx/bundle/install_csh.py -> build/bdist.linux-x86_64/wheel/./libtbx/bundle copying build/lib/libtbx/bundle/__init__.py -> build/bdist.linux-x86_64/wheel/./libtbx/bundle copying build/lib/libtbx/bundle/copy_all.py -> build/bdist.linux-x86_64/wheel/./libtbx/bundle copying build/lib/libtbx/bundle/copy_runtime_sources.py -> build/bdist.linux-x86_64/wheel/./libtbx/bundle copying build/lib/libtbx/bundle/install_bat.py -> build/bdist.linux-x86_64/wheel/./libtbx/bundle copying build/lib/libtbx/bundle/utils.py -> build/bdist.linux-x86_64/wheel/./libtbx/bundle copying build/lib/libtbx/tst_python_code_parsing.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/str_utils.py -> build/bdist.linux-x86_64/wheel/./libtbx creating build/bdist.linux-x86_64/wheel/libtbx/test_utils copying build/lib/libtbx/test_utils/parallel.py -> build/bdist.linux-x86_64/wheel/./libtbx/test_utils copying build/lib/libtbx/test_utils/__init__.py -> build/bdist.linux-x86_64/wheel/./libtbx/test_utils copying build/lib/libtbx/binary_search.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/tst_topological_sort.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/option_parser.py -> build/bdist.linux-x86_64/wheel/./libtbx creating build/bdist.linux-x86_64/wheel/libtbx/program_utils copying build/lib/libtbx/program_utils/statistics_info.py -> build/bdist.linux-x86_64/wheel/./libtbx/program_utils copying build/lib/libtbx/program_utils/__init__.py -> build/bdist.linux-x86_64/wheel/./libtbx/program_utils copying build/lib/libtbx/program_utils/result.py -> build/bdist.linux-x86_64/wheel/./libtbx/program_utils copying build/lib/libtbx/try_hello_world_c.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/pyframe.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/wingide.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/tst_find_unused_imports.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/__init__.py -> build/bdist.linux-x86_64/wheel/./libtbx creating build/bdist.linux-x86_64/wheel/libtbx/server copying build/lib/libtbx/server/StartServer.py -> build/bdist.linux-x86_64/wheel/./libtbx/server copying build/lib/libtbx/server/FileSocket.py -> build/bdist.linux-x86_64/wheel/./libtbx/server copying build/lib/libtbx/server/FileServer.py -> build/bdist.linux-x86_64/wheel/./libtbx/server copying build/lib/libtbx/server/__init__.py -> build/bdist.linux-x86_64/wheel/./libtbx/server copying build/lib/libtbx/server/FileClient.py -> build/bdist.linux-x86_64/wheel/./libtbx/server copying build/lib/libtbx/server/SocketServer.py -> build/bdist.linux-x86_64/wheel/./libtbx/server copying build/lib/libtbx/tst_add_docstrings_with_ai.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/env_config.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/tst_easy_mp_multicore.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/tst_dlite.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/start_print_trace.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/run_tests.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/easy_pickle.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/introspection.py -> build/bdist.linux-x86_64/wheel/./libtbx creating build/bdist.linux-x86_64/wheel/libtbx/auto_build copying build/lib/libtbx/auto_build/make_bundle.py -> build/bdist.linux-x86_64/wheel/./libtbx/auto_build copying build/lib/libtbx/auto_build/install_distribution.py -> build/bdist.linux-x86_64/wheel/./libtbx/auto_build copying build/lib/libtbx/auto_build/create_installer.py -> build/bdist.linux-x86_64/wheel/./libtbx/auto_build copying build/lib/libtbx/auto_build/regenerate_module_files.py -> build/bdist.linux-x86_64/wheel/./libtbx/auto_build copying build/lib/libtbx/auto_build/bootstrap.py -> build/bdist.linux-x86_64/wheel/./libtbx/auto_build copying build/lib/libtbx/auto_build/package_defs.py -> build/bdist.linux-x86_64/wheel/./libtbx/auto_build copying build/lib/libtbx/auto_build/create_mac_app.py -> build/bdist.linux-x86_64/wheel/./libtbx/auto_build copying build/lib/libtbx/auto_build/setup_installer.py -> build/bdist.linux-x86_64/wheel/./libtbx/auto_build copying build/lib/libtbx/auto_build/plus_installer.py -> build/bdist.linux-x86_64/wheel/./libtbx/auto_build copying build/lib/libtbx/auto_build/rpath.py -> build/bdist.linux-x86_64/wheel/./libtbx/auto_build copying build/lib/libtbx/auto_build/create_windows_exe.py -> build/bdist.linux-x86_64/wheel/./libtbx/auto_build copying build/lib/libtbx/auto_build/install_base_packages.py -> build/bdist.linux-x86_64/wheel/./libtbx/auto_build copying build/lib/libtbx/auto_build/create_windows_installer.py -> build/bdist.linux-x86_64/wheel/./libtbx/auto_build copying build/lib/libtbx/auto_build/installer_utils.py -> build/bdist.linux-x86_64/wheel/./libtbx/auto_build copying build/lib/libtbx/auto_build/__init__.py -> build/bdist.linux-x86_64/wheel/./libtbx/auto_build copying build/lib/libtbx/auto_build/write_gui_dispatcher_include.py -> build/bdist.linux-x86_64/wheel/./libtbx/auto_build copying build/lib/libtbx/auto_build/create_cctbx_bundle_for_installer.py -> build/bdist.linux-x86_64/wheel/./libtbx/auto_build copying build/lib/libtbx/auto_build/install_conda.py -> build/bdist.linux-x86_64/wheel/./libtbx/auto_build copying build/lib/libtbx/auto_build/create_mac_pkg.py -> build/bdist.linux-x86_64/wheel/./libtbx/auto_build copying build/lib/libtbx/tst_run_tests_parallel_retry.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/tst_word_index_generator.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/metric_prefixes.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/callbacks.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/tst_object_oriented_patterns.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/tst_easy_mp.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/mpi4py.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/libtbx_refresh.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/topological_sort.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/program_template.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/tst_math_utils.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/python_code_parsing.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/containers.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/tst_runtime_utils.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/load_env.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/easy_mp.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/runtime_utils.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/version.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/xmlrpc_server_example.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/subprocess_with_fixes.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/utils.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/pyplot.py -> build/bdist.linux-x86_64/wheel/./libtbx copying build/lib/libtbx/tst_path.py -> build/bdist.linux-x86_64/wheel/./libtbx creating build/bdist.linux-x86_64/wheel/cctbx_website creating build/bdist.linux-x86_64/wheel/cctbx_website/command_line copying build/lib/cctbx_website/command_line/extract_script_from_html_cctbx_doc.py -> build/bdist.linux-x86_64/wheel/./cctbx_website/command_line copying build/lib/cctbx_website/command_line/run_pdoc_cctbx_api.py -> build/bdist.linux-x86_64/wheel/./cctbx_website/command_line copying build/lib/cctbx_website/command_line/comment_to_docstring.py -> build/bdist.linux-x86_64/wheel/./cctbx_website/command_line copying build/lib/cctbx_website/command_line/tst_comment_to_docstring.py -> build/bdist.linux-x86_64/wheel/./cctbx_website/command_line copying build/lib/cctbx_website/command_line/edit_html.py -> build/bdist.linux-x86_64/wheel/./cctbx_website/command_line copying build/lib/cctbx_website/command_line/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx_website/command_line copying build/lib/cctbx_website/command_line/edit_for_boost.py -> build/bdist.linux-x86_64/wheel/./cctbx_website/command_line creating build/bdist.linux-x86_64/wheel/cctbx_website/regression copying build/lib/cctbx_website/regression/tst_3_doc_hlo_model_manager.py -> build/bdist.linux-x86_64/wheel/./cctbx_website/regression copying build/lib/cctbx_website/regression/tst_15_doc_models_hierarchy.py -> build/bdist.linux-x86_64/wheel/./cctbx_website/regression copying build/lib/cctbx_website/regression/tst_1_template.py -> build/bdist.linux-x86_64/wheel/./cctbx_website/regression copying build/lib/cctbx_website/regression/tst_5_doc_hlo_map_manager.py -> build/bdist.linux-x86_64/wheel/./cctbx_website/regression copying build/lib/cctbx_website/regression/tst_4_doc_hlo_data_manager.py -> build/bdist.linux-x86_64/wheel/./cctbx_website/regression copying build/lib/cctbx_website/regression/tst_6_doc_hlo_model_map_manager.py -> build/bdist.linux-x86_64/wheel/./cctbx_website/regression copying build/lib/cctbx_website/regression/tst_9_doc_maps_boxing.py -> build/bdist.linux-x86_64/wheel/./cctbx_website/regression copying build/lib/cctbx_website/regression/tst_py_from_html.py -> build/bdist.linux-x86_64/wheel/./cctbx_website/regression copying build/lib/cctbx_website/regression/exercise.py -> build/bdist.linux-x86_64/wheel/./cctbx_website/regression copying build/lib/cctbx_website/regression/tst_18_doc_programming_tips_2.py -> build/bdist.linux-x86_64/wheel/./cctbx_website/regression copying build/lib/cctbx_website/regression/tst_19_doc_programming_tips_3.py -> build/bdist.linux-x86_64/wheel/./cctbx_website/regression copying build/lib/cctbx_website/regression/tst_13_script_ideal_ss.py -> build/bdist.linux-x86_64/wheel/./cctbx_website/regression copying build/lib/cctbx_website/regression/tst_14_script_lbfgs_no_curvature.py -> build/bdist.linux-x86_64/wheel/./cctbx_website/regression copying build/lib/cctbx_website/regression/tst_10_doc_programming_tips_1.py -> build/bdist.linux-x86_64/wheel/./cctbx_website/regression copying build/lib/cctbx_website/regression/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx_website/regression copying build/lib/cctbx_website/regression/tst_17_script_rfactors.py -> build/bdist.linux-x86_64/wheel/./cctbx_website/regression copying build/lib/cctbx_website/regression/tst_2_doc_hlo_intro.py -> build/bdist.linux-x86_64/wheel/./cctbx_website/regression copying build/lib/cctbx_website/regression/tst_8_doc_maps_intro.py -> build/bdist.linux-x86_64/wheel/./cctbx_website/regression copying build/lib/cctbx_website/regression/tst_7_doc_low_flex_advanced.py -> build/bdist.linux-x86_64/wheel/./cctbx_website/regression copying build/lib/cctbx_website/regression/tst_12_script_compare_ss.py -> build/bdist.linux-x86_64/wheel/./cctbx_website/regression copying build/lib/cctbx_website/regression/tst_11_script_1.py -> build/bdist.linux-x86_64/wheel/./cctbx_website/regression copying build/lib/cctbx_website/regression/tst_16_script_lbfgs_with_curvature.py -> build/bdist.linux-x86_64/wheel/./cctbx_website/regression copying build/lib/cctbx_website/__init__.py -> build/bdist.linux-x86_64/wheel/./cctbx_website copying build/lib/cctbx_website/run_tests.py -> build/bdist.linux-x86_64/wheel/./cctbx_website copying build/lib/cctbx_website/libtbx_refresh.py -> build/bdist.linux-x86_64/wheel/./cctbx_website creating build/bdist.linux-x86_64/wheel/cbflib_adaptbx creating build/bdist.linux-x86_64/wheel/cbflib_adaptbx/command_line copying build/lib/cbflib_adaptbx/command_line/dump.py -> build/bdist.linux-x86_64/wheel/./cbflib_adaptbx/command_line copying build/lib/cbflib_adaptbx/command_line/__init__.py -> build/bdist.linux-x86_64/wheel/./cbflib_adaptbx/command_line copying build/lib/cbflib_adaptbx/copy_files.py -> build/bdist.linux-x86_64/wheel/./cbflib_adaptbx copying build/lib/cbflib_adaptbx/exercise_compression.py -> build/bdist.linux-x86_64/wheel/./cbflib_adaptbx copying build/lib/cbflib_adaptbx/__init__.py -> build/bdist.linux-x86_64/wheel/./cbflib_adaptbx copying build/lib/cbflib_adaptbx/run_tests.py -> build/bdist.linux-x86_64/wheel/./cbflib_adaptbx running install_egg_info Copying cctbx.egg-info to build/bdist.linux-x86_64/wheel/./cctbx-2023.12.egg-info running install_scripts creating build/bdist.linux-x86_64/wheel/cctbx-2023.12.dist-info/WHEEL creating '/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/.tmp-9_31seyz/cctbx-2023.12-py3-none-any.whl' and adding 'build/bdist.linux-x86_64/wheel' to it adding 'annlib_adaptbx/__init__.py' adding 'annlib_adaptbx/run_tests.py' adding 'annlib_adaptbx/annlib_adaptbx/__init__.py' adding 'annlib_adaptbx/annlib_adaptbx/sample.py' adding 'annlib_adaptbx/annlib_adaptbx/self_match.py' adding 'annlib_adaptbx/source_generators/__init__.py' adding 'annlib_adaptbx/source_generators/generate_all.py' adding 'boost/__init__.py' adding 'boost/optional.py' adding 'boost/python.py' adding 'boost/rational.py' adding 'boost/std_pair.py' adding 'boost/tuple.py' adding 'boost_adaptbx/__init__.py' adding 'boost_adaptbx/hybrid_times.py' adding 'boost_adaptbx/libtbx_refresh.py' adding 'boost_adaptbx/run_tests.py' adding 'boost_adaptbx/boost/__init__.py' adding 'boost_adaptbx/boost/optional.py' adding 'boost_adaptbx/boost/python.py' adding 'boost_adaptbx/boost/rational.py' adding 'boost_adaptbx/boost/std_pair.py' adding 'boost_adaptbx/boost/tuple.py' adding 'boost_adaptbx/command_line/__init__.py' adding 'boost_adaptbx/command_line/divide_by_zero.py' adding 'boost_adaptbx/command_line/double_overflow.py' adding 'boost_adaptbx/command_line/gcd.py' adding 'boost_adaptbx/command_line/inexact.py' adding 'boost_adaptbx/command_line/int_overflow.py' adding 'boost_adaptbx/command_line/lcm.py' adding 'boost_adaptbx/command_line/nested_cpp_loops_with_check_signals.py' adding 'boost_adaptbx/command_line/segmentation_fault.py' adding 'boost_adaptbx/command_line/show_environ_usage.py' adding 'boost_adaptbx/command_line/show_platform_info.py' adding 'boost_adaptbx/graph/__init__.py' adding 'boost_adaptbx/graph/breadth_first_search.py' adding 'boost_adaptbx/graph/clustering_algorithm.py' adding 'boost_adaptbx/graph/connected_component_algorithm.py' adding 'boost_adaptbx/graph/graph_structure_comparison.py' adding 'boost_adaptbx/graph/maximum_clique.py' adding 'boost_adaptbx/graph/metric.py' adding 'boost_adaptbx/graph/min_cut_max_flow.py' adding 'boost_adaptbx/graph/minimum_cut_enumerate.py' adding 'boost_adaptbx/graph/utility.py' adding 'cbflib_adaptbx/__init__.py' adding 'cbflib_adaptbx/copy_files.py' adding 'cbflib_adaptbx/exercise_compression.py' adding 'cbflib_adaptbx/run_tests.py' adding 'cbflib_adaptbx/command_line/__init__.py' adding 'cbflib_adaptbx/command_line/dump.py' adding 'ccp4io_adaptbx/__init__.py' adding 'ccp4io_adaptbx/copy_files.py' adding 'ccp4io_adaptbx/tst.py' adding 'cctbx/__init__.py' adding 'cctbx/adptbx.py' adding 'cctbx/anharmonic.py' adding 'cctbx/crystal_orientation.py' adding 'cctbx/dmtbx.py' adding 'cctbx/euclidean_model_matching.py' adding 'cctbx/french_wilson.py' adding 'cctbx/libtbx_refresh.py' adding 'cctbx/math_module.py' adding 'cctbx/multipolar.py' adding 'cctbx/r_free_utils.py' adding 'cctbx/run_examples.py' adding 'cctbx/run_tests.py' adding 'cctbx/statistics.py' adding 'cctbx/symmetry_search.py' adding 'cctbx/translation_search.py' adding 'cctbx/adp_restraints/__init__.py' adding 'cctbx/adp_restraints/energies.py' adding 'cctbx/adp_restraints/flags.py' adding 'cctbx/adp_restraints/tst_ext.py' adding 'cctbx/array_family/__init__.py' adding 'cctbx/array_family/flex.py' adding 'cctbx/command_line/__init__.py' adding 'cctbx/command_line/auto_sharpen.py' adding 'cctbx/command_line/brehm_diederichs.py' adding 'cctbx/command_line/cctbx_test_nightly.py' adding 'cctbx/command_line/cod_select_and_pickle.py' adding 'cctbx/command_line/diffuse.py' adding 'cctbx/command_line/eltbx.show_fp_fdp.py' adding 'cctbx/command_line/euclidean_model_matching.py' adding 'cctbx/command_line/find_reticular_twin_laws.py' adding 'cctbx/command_line/form_factor_query.py' adding 'cctbx/command_line/precession_view.py' adding 'cctbx/command_line/qscore.py' adding 'cctbx/command_line/samosa_join.py' adding 'cctbx/command_line/samosa_scale.py' adding 'cctbx/command_line/segment_and_split_map.py' adding 'cctbx/command_line/space_group_info.py' adding 'cctbx/command_line/structure_factor_timings.py' adding 'cctbx/command_line/subgroups.py' adding 'cctbx/command_line/version.py' adding 'cctbx/command_line/wavelength_units.py' adding 'cctbx/covariance/__init__.py' adding 'cctbx/crystal/__init__.py' adding 'cctbx/crystal/burzlaff_zimmermann_dewolff.py' adding 'cctbx/crystal/close_packing.py' adding 'cctbx/crystal/coordination_sequences.py' adding 'cctbx/crystal/direct_space_asu.py' adding 'cctbx/crystal/distance_based_connectivity.py' adding 'cctbx/crystal/find_best_cell.py' adding 'cctbx/crystal/reindex.py' adding 'cctbx/crystal/super_cell.py' adding 'cctbx/crystal/tst_distance_based_connectivity.py' adding 'cctbx/crystal/tst_ext.py' adding 'cctbx/crystal/tst_super_cell.py' adding 'cctbx/development/__init__.py' adding 'cctbx/development/approx_amplitude_vs_resolution.py' adding 'cctbx/development/cns_density_modification.py' adding 'cctbx/development/create_models_or_maps.py' adding 'cctbx/development/debug_utils.py' adding 'cctbx/development/direct_or_fft.py' adding 'cctbx/development/electron_density_sampling.py' adding 'cctbx/development/fmt_utils.py' adding 'cctbx/development/github.py' adding 'cctbx/development/make_cns_input.py' adding 'cctbx/development/make_settings.py' adding 'cctbx/development/random_structure.py' adding 'cctbx/development/run_shelx.py' adding 'cctbx/development/run_shelx76.py' adding 'cctbx/development/space_group_option_parser.py' adding 'cctbx/development/structure_factor_utils.py' adding 'cctbx/development/tst_cns_epsilon.py' adding 'cctbx/development/tst_cns_hl.py' adding 'cctbx/eltbx/__init__.py' adding 'cctbx/eltbx/attenuation_coefficient.py' adding 'cctbx/eltbx/chemical_elements.py' adding 'cctbx/eltbx/covalent_radii.py' adding 'cctbx/eltbx/distance_based_connectivity.py' adding 'cctbx/eltbx/e_scattering.py' adding 'cctbx/eltbx/formula.py' adding 'cctbx/eltbx/fp_fdp.py' adding 'cctbx/eltbx/gaussian_fit.py' adding 'cctbx/eltbx/henke.py' adding 'cctbx/eltbx/icsd_radii.py' adding 'cctbx/eltbx/neutron.py' adding 'cctbx/eltbx/read_custom_scattering_dict.py' adding 'cctbx/eltbx/sasaki.py' adding 'cctbx/eltbx/tiny_pse.py' adding 'cctbx/eltbx/van_der_waals_radii.py' adding 'cctbx/eltbx/wavelengths.py' adding 'cctbx/eltbx/development/__init__.py' adding 'cctbx/eltbx/development/combine_fits.py' adding 'cctbx/eltbx/development/create_n_gaussian_raw_cpp.py' adding 'cctbx/eltbx/development/e_scattering_plots.py' adding 'cctbx/eltbx/development/format_gaussian_fits.py' adding 'cctbx/eltbx/development/hydrogen_plots.py' adding 'cctbx/eltbx/development/itvc_approx.py' adding 'cctbx/eltbx/development/itvc_cross_validation.py' adding 'cctbx/eltbx/development/itvc_fits.py' adding 'cctbx/eltbx/development/itvc_kissel.py' adding 'cctbx/eltbx/development/itvc_section61_io.py' adding 'cctbx/eltbx/development/kissel_fits.py' adding 'cctbx/eltbx/development/kissel_io.py' adding 'cctbx/eltbx/development/rez_rez_grant.py' adding 'cctbx/eltbx/xray_scattering/__init__.py' adding 'cctbx/examples/__init__.py' adding 'cctbx/examples/adp_symmetry_constraints.py' adding 'cctbx/examples/all_axes.py' adding 'cctbx/examples/analyze_adp.py' adding 'cctbx/examples/ccp4_map.py' adding 'cctbx/examples/change_hand_p31.py' adding 'cctbx/examples/convert_ccp4_symop_lib.py' adding 'cctbx/examples/cr2o3_consistency_checks.py' adding 'cctbx/examples/cr2o3_primitive_cell.py' adding 'cctbx/examples/exp_i_alpha_derivatives.py' adding 'cctbx/examples/f_model_example.py' adding 'cctbx/examples/fft_map_electron_density_around_atom.py' adding 'cctbx/examples/find_distances_using_cpp_objects.py' adding 'cctbx/examples/find_sys_abs_equiv_space_groups.py' adding 'cctbx/examples/g_exp_i_alpha_derivatives.py' adding 'cctbx/examples/g_exp_i_partial_derivatives.py' adding 'cctbx/examples/getting_started.py' adding 'cctbx/examples/hirshfeld_test.py' adding 'cctbx/examples/le_page_1982_vs_lebedev_2005.py' adding 'cctbx/examples/lebedev_2005_perturbation.py' adding 'cctbx/examples/list_non_principal_continuous_shifts.py' adding 'cctbx/examples/location_part.py' adding 'cctbx/examples/map_skewness.py' adding 'cctbx/examples/maximum_subgroups.py' adding 'cctbx/examples/miller_common_sets.py' adding 'cctbx/examples/miller_transform.py' adding 'cctbx/examples/neutron_structure_factors.py' adding 'cctbx/examples/phase_o_phrenia.py' adding 'cctbx/examples/quartz_structure.py' adding 'cctbx/examples/random_f_calc.py' adding 'cctbx/examples/random_puckers.py' adding 'cctbx/examples/reduced_cell_two_folds.py' adding 'cctbx/examples/site_symmetry_constraints.py' adding 'cctbx/examples/site_symmetry_table.py' adding 'cctbx/examples/space_group_matrices.py' adding 'cctbx/examples/space_subgroups.py' adding 'cctbx/examples/steve_collins.py' adding 'cctbx/examples/structure_factor_derivatives.py' adding 'cctbx/examples/structure_factor_derivatives_2.py' adding 'cctbx/examples/structure_factor_derivatives_3.py' adding 'cctbx/examples/structure_factor_derivatives_4.py' adding 'cctbx/examples/sub_group_graph.py' adding 'cctbx/examples/symops_530.py' adding 'cctbx/examples/trigonal_r_vs_tetragonal_i.py' adding 'cctbx/examples/tst_exp_i_alpha_derivatives.py' adding 'cctbx/examples/tst_g_exp_i_alpha_derivatives.py' adding 'cctbx/examples/tst_phase_o_phrenia.py' adding 'cctbx/examples/tst_space_subgroups.py' adding 'cctbx/examples/tst_structure_factor_derivatives.py' adding 'cctbx/examples/tst_structure_factor_derivatives_2.py' adding 'cctbx/examples/tst_structure_factor_derivatives_3.py' adding 'cctbx/examples/tst_structure_factor_derivatives_4.py' adding 'cctbx/examples/unit_cell_minimizers.py' adding 'cctbx/examples/unit_cell_refinement.py' adding 'cctbx/examples/view_fft_map.py' adding 'cctbx/examples/merging/__init__.py' adding 'cctbx/examples/merging/data_subset.py' adding 'cctbx/examples/merging/data_utilities.py' adding 'cctbx/examples/merging/show_results.py' adding 'cctbx/examples/merging/sigma_correction.py' adding 'cctbx/examples/merging/task4.py' adding 'cctbx/examples/merging/test1.py' adding 'cctbx/examples/merging/test_cc_half.py' adding 'cctbx/examples/merging/test_levenberg_sparse.py' adding 'cctbx/examples/merging/tst_permutations.py' adding 'cctbx/examples/merging/samosa/__init__.py' adding 'cctbx/examples/merging/samosa/join.py' adding 'cctbx/examples/merging/samosa/per_lattice_postrefinement.py' adding 'cctbx/examples/merging/samosa/scale.py' adding 'cctbx/examples/structure_factor_calculus/__init__.py' adding 'cctbx/examples/structure_factor_calculus/site_derivatives.py' adding 'cctbx/examples/structure_factor_calculus/sites_derivatives.py' adding 'cctbx/examples/structure_factor_calculus/sites_least_squares_derivatives.py' adding 'cctbx/examples/structure_factor_calculus/u_star_derivatives.py' adding 'cctbx/geometry/__init__.py' adding 'cctbx/geometry_restraints/__init__.py' adding 'cctbx/geometry_restraints/auto_linking_types.py' adding 'cctbx/geometry_restraints/base_geometry.py' adding 'cctbx/geometry_restraints/distance_least_squares.py' adding 'cctbx/geometry_restraints/energies.py' adding 'cctbx/geometry_restraints/flags.py' adding 'cctbx/geometry_restraints/lbfgs.py' adding 'cctbx/geometry_restraints/linking_class.py' adding 'cctbx/geometry_restraints/manager.py' adding 'cctbx/geometry_restraints/process_nonbonded_proxies.py' adding 'cctbx/geometry_restraints/standard_cif_links.py' adding 'cctbx/geometry_restraints/tst_angle_derivs.py' adding 'cctbx/geometry_restraints/tst_ext.py' adding 'cctbx/geometry_restraints/tst_motif.py' adding 'cctbx/geometry_restraints/tst_process_nonbonded_proxies.py' adding 'cctbx/geometry_restraints/tst_proxy_registry.py' adding 'cctbx/macro_mol/__init__.py' adding 'cctbx/macro_mol/rotation_parameters.py' adding 'cctbx/maptbx/__init__.py' adding 'cctbx/maptbx/auto_sharpen.py' adding 'cctbx/maptbx/box.py' adding 'cctbx/maptbx/fsc_curve.py' adding 'cctbx/maptbx/map_symmetry.py' adding 'cctbx/maptbx/mask.py' adding 'cctbx/maptbx/mem.py' adding 'cctbx/maptbx/minimization.py' adding 'cctbx/maptbx/prepare_map_for_docking.py' adding 'cctbx/maptbx/prepare_map_for_refinement.py' adding 'cctbx/maptbx/qscore.py' adding 'cctbx/maptbx/real_space_refinement_simple.py' adding 'cctbx/maptbx/refine_scales_errors.py' adding 'cctbx/maptbx/refine_sharpening.py' adding 'cctbx/maptbx/resolution_from_map_and_model.py' adding 'cctbx/maptbx/segment_and_split_map.py' adding 'cctbx/maptbx/tst_asymmetric_map.py' adding 'cctbx/maptbx/tst_atom_curves.py' adding 'cctbx/maptbx/tst_atom_radius_as_central_peak_width.py' adding 'cctbx/maptbx/tst_bcr.py' adding 'cctbx/maptbx/tst_ccp.py' adding 'cctbx/maptbx/tst_get_percentile_cutoffs.py' adding 'cctbx/maptbx/tst_interpolation.py' adding 'cctbx/maptbx/tst_interpolation_2.py' adding 'cctbx/maptbx/tst_loft.py' adding 'cctbx/maptbx/tst_map_peak_3d_as_2d.py' adding 'cctbx/maptbx/tst_mask.py' adding 'cctbx/maptbx/tst_peak_volume_estimate.py' adding 'cctbx/maptbx/tst_qscore.py' adding 'cctbx/maptbx/tst_real_space_refinement_simple.py' adding 'cctbx/maptbx/tst_resolution_from_map_and_model.py' adding 'cctbx/maptbx/tst_target_and_gradients.py' adding 'cctbx/maptbx/bcr/__init__.py' adding 'cctbx/maptbx/bcr/bcr.py' adding 'cctbx/maptbx/bcr/compute_tables.py' adding 'cctbx/maptbx/bcr/qmap.py' adding 'cctbx/maptbx/bcr/tst_adp_refine.py' adding 'cctbx/maptbx/bcr/tst_example.py' adding 'cctbx/maptbx/bcr/tst_qmap_02.py' adding 'cctbx/maptbx/bcr/tst_table.py' adding 'cctbx/maptbx/bcr/tst_two_atoms.py' adding 'cctbx/maptbx/bcr/tst_vrm.py' adding 'cctbx/maptbx/bcr/tst_vrm2.py' adding 'cctbx/masks/__init__.py' adding 'cctbx/merging/__init__.py' adding 'cctbx/merging/brehm_diederichs.py' adding 'cctbx/miller/__init__.py' adding 'cctbx/miller/display.py' adding 'cctbx/miller/reindexing.py' adding 'cctbx/miller/tst_map_to_asu_isym.py' adding 'cctbx/miller/tst_reindexing.py' adding 'cctbx/neutron/__init__.py' adding 'cctbx/omz/__init__.py' adding 'cctbx/omz/bfgs.py' adding 'cctbx/omz/cif_refine.py' adding 'cctbx/omz/cod_refine.py' adding 'cctbx/omz/cod_select_and_pickle.py' adding 'cctbx/omz/dev.py' adding 'cctbx/omz/eval_iso_vs_refined.py' adding 'cctbx/omz/pdb_dev.py' adding 'cctbx/omz/tardy_adaptor.py' adding 'cctbx/omz/tst_bfgs.py' adding 'cctbx/omz/tst_dev.py' adding 'cctbx/regression/__init__.py' adding 'cctbx/regression/tst_adp_aniso_restraints.py' adding 'cctbx/regression/tst_adp_constraints.py' adding 'cctbx/regression/tst_adp_constraints_cartesian.py' adding 'cctbx/regression/tst_amplitude_normalisation.py' adding 'cctbx/regression/tst_change_basis.py' adding 'cctbx/regression/tst_connectivity.py' adding 'cctbx/regression/tst_connectivity_allsym.py' adding 'cctbx/regression/tst_coordination_sequences.py' adding 'cctbx/regression/tst_create_models_or_maps.py' adding 'cctbx/regression/tst_crystal.py' adding 'cctbx/regression/tst_crystal_asu_clusters.py' adding 'cctbx/regression/tst_crystal_close_packing.py' adding 'cctbx/regression/tst_diffuse.py' adding 'cctbx/regression/tst_direct_scaling.py' adding 'cctbx/regression/tst_direct_space_asu.py' adding 'cctbx/regression/tst_emma.py' adding 'cctbx/regression/tst_expand_to_p1.py' adding 'cctbx/regression/tst_f_model.py' adding 'cctbx/regression/tst_fast_nv1995.py' adding 'cctbx/regression/tst_fcalc_fft_stability.py' adding 'cctbx/regression/tst_find_best_cell.py' adding 'cctbx/regression/tst_fourier_transform_real_part_at_x.py' adding 'cctbx/regression/tst_french_wilson.py' adding 'cctbx/regression/tst_geometry_restraints.py' adding 'cctbx/regression/tst_geometry_restraints_2.py' adding 'cctbx/regression/tst_geometry_restraints_lbfgs.py' adding 'cctbx/regression/tst_grm_modifications.py' adding 'cctbx/regression/tst_grm_modifications_rm.py' adding 'cctbx/regression/tst_grm_pickling.py' adding 'cctbx/regression/tst_grouped_data.py' adding 'cctbx/regression/tst_itvb_2001_table_a1427_hall_symbols.py' adding 'cctbx/regression/tst_krivy_gruber.py' adding 'cctbx/regression/tst_loc_res.py' adding 'cctbx/regression/tst_map_is_periodic.py' adding 'cctbx/regression/tst_map_weights_for_symmetry_summation.py' adding 'cctbx/regression/tst_maptbx_box.py' adding 'cctbx/regression/tst_maptbx_mask.py' adding 'cctbx/regression/tst_maptbx_structure_factors.py' adding 'cctbx/regression/tst_math_module.py' adding 'cctbx/regression/tst_mem.py' adding 'cctbx/regression/tst_mem_2.py' adding 'cctbx/regression/tst_miller.py' adding 'cctbx/regression/tst_miller_data_manipulation.py' adding 'cctbx/regression/tst_miller_double_step_filtration.py' adding 'cctbx/regression/tst_miller_fft_map.py' adding 'cctbx/regression/tst_miller_lookup_utils.py' adding 'cctbx/regression/tst_miller_merge_equivalents.py' adding 'cctbx/regression/tst_miller_statistics.py' adding 'cctbx/regression/tst_niggli_reduction_cpp.py' adding 'cctbx/regression/tst_pair_asu_table.py' adding 'cctbx/regression/tst_pointgroup_tools.py' adding 'cctbx/regression/tst_prepare_map_for_docking.py' adding 'cctbx/regression/tst_r_free_utils.py' adding 'cctbx/regression/tst_reciprocal_space_asu.py' adding 'cctbx/regression/tst_refine_xray_curvs.py' adding 'cctbx/regression/tst_reflection_statistics.py' adding 'cctbx/regression/tst_sampled_model_density.py' adding 'cctbx/regression/tst_sf_low_res_accuracy.py' adding 'cctbx/regression/tst_sgtbx.py' adding 'cctbx/regression/tst_sgtbx_denominators.py' adding 'cctbx/regression/tst_sgtbx_harker.py' adding 'cctbx/regression/tst_sgtbx_lattice_symmetry.py' adding 'cctbx/regression/tst_sgtbx_site_constraints.py' adding 'cctbx/regression/tst_sgtbx_special_op_simplifier.py' adding 'cctbx/regression/tst_sgtbx_subgroups.py' adding 'cctbx/regression/tst_sgtbx_tidy_pickling.py' adding 'cctbx/regression/tst_show_cosets.py' adding 'cctbx/regression/tst_space_group_type_tidy_cb_op_t.py' adding 'cctbx/regression/tst_sphericity.py' adding 'cctbx/regression/tst_statistics_graphs.py' adding 'cctbx/regression/tst_triplet_generator.py' adding 'cctbx/regression/tst_twin_target.py' adding 'cctbx/regression/tst_wavelength_units.py' adding 'cctbx/regression/tst_web_change_basis.py' adding 'cctbx/regression/tst_weighting_schemes.py' adding 'cctbx/regression/tst_wilson_plot.py' adding 'cctbx/regression/tst_xray.py' adding 'cctbx/regression/tst_xray_derivatives.py' adding 'cctbx/regression/tst_xray_fast_gradients.py' adding 'cctbx/regression/tst_xray_minimization.py' adding 'cctbx/regression/tst_xray_minimization_failure.py' adding 'cctbx/regression/tst_xray_target_functors.py' adding 'cctbx/sgtbx/__init__.py' adding 'cctbx/sgtbx/bravais_types.py' adding 'cctbx/sgtbx/cosets.py' adding 'cctbx/sgtbx/harker.py' adding 'cctbx/sgtbx/lattice_symmetry.py' adding 'cctbx/sgtbx/literal_description.py' adding 'cctbx/sgtbx/plane_groups.py' adding 'cctbx/sgtbx/pointgroup_tools.py' adding 'cctbx/sgtbx/rational_matrices_point_groups.py' adding 'cctbx/sgtbx/reticular_pg_tools.py' adding 'cctbx/sgtbx/reticular_twin_laws.py' adding 'cctbx/sgtbx/show_cosets.py' adding 'cctbx/sgtbx/sub_lattice_tools.py' adding 'cctbx/sgtbx/subgroups.py' adding 'cctbx/sgtbx/symbol_confidence.py' adding 'cctbx/sgtbx/sys_abs_equiv.py' adding 'cctbx/sgtbx/direct_space_asu/__init__.py' adding 'cctbx/sgtbx/direct_space_asu/check_redundancies.py' adding 'cctbx/sgtbx/direct_space_asu/cut_plane.py' adding 'cctbx/sgtbx/direct_space_asu/facet_analysis.py' adding 'cctbx/sgtbx/direct_space_asu/plane_group_reference_table.py' adding 'cctbx/sgtbx/direct_space_asu/reference_table.py' adding 'cctbx/sgtbx/direct_space_asu/short_cuts.py' adding 'cctbx/sgtbx/direct_space_asu/proto/__init__.py' adding 'cctbx/sgtbx/direct_space_asu/proto/generate_cpp_asu_table.py' adding 'cctbx/sgtbx/direct_space_asu/proto/tst_asu.py' adding 'cctbx/source_generators/__init__.py' adding 'cctbx/source_generators/flex_fwd_h.py' adding 'cctbx/source_generators/eltbx/__init__.py' adding 'cctbx/source_generators/eltbx/generate_henke_cpp.py' adding 'cctbx/source_generators/eltbx/generate_sasaki_cpp.py' adding 'cctbx/uctbx/__init__.py' adding 'cctbx/uctbx/gruber_1973.py' adding 'cctbx/uctbx/gruber_1973_table_1.py' adding 'cctbx/uctbx/krivy_gruber_1976.py' adding 'cctbx/uctbx/reduction_base.py' adding 'cctbx/uctbx/determine_unit_cell/__init__.py' adding 'cctbx/web/__init__.py' adding 'cctbx/web/all_axes.py' adding 'cctbx/web/browse_settings.py' adding 'cctbx/web/cgi_utils.py' adding 'cctbx/web/change_basis.py' adding 'cctbx/web/change_hand.py' adding 'cctbx/web/change_setting.py' adding 'cctbx/web/dispatcher.py' adding 'cctbx/web/emma.py' adding 'cctbx/web/explore_symmetry.py' adding 'cctbx/web/frac_cart.py' adding 'cctbx/web/io_utils.py' adding 'cctbx/web/iotbx_cif_validate.py' adding 'cctbx/web/lattice_symmetry.py' adding 'cctbx/web/libtbx_help.py' adding 'cctbx/web/multiple_cell.py' adding 'cctbx/web/phase_o_phrenia.py' adding 'cctbx/web/replay.py' adding 'cctbx/web/shelx.py' adding 'cctbx/web/structure_factors.py' adding 'cctbx/web/structure_factors_pdb.py' adding 'cctbx/web/wyckoff.py' adding 'cctbx/web/asu_gallery/__init__.py' adding 'cctbx/web/asu_gallery/guide_to_notation.py' adding 'cctbx/web/asu_gallery/jv_asu.py' adding 'cctbx/web/asu_gallery/jv_index.py' adding 'cctbx/web/asu_gallery/jvx.py' adding 'cctbx/web/asu_gallery/web_links.py' adding 'cctbx/xray/__init__.py' adding 'cctbx/xray/ext.py' adding 'cctbx/xray/minimization.py' adding 'cctbx/xray/observation_types.py' adding 'cctbx/xray/scatterer.py' adding 'cctbx/xray/structure.py' adding 'cctbx/xray/target_functors.py' adding 'cctbx/xray/weighting_schemes.py' adding 'cctbx/xray/observations/__init__.py' adding 'cctbx/xray/observations/tst_observations.py' adding 'cctbx/xray/structure_factors/__init__.py' adding 'cctbx/xray/structure_factors/algorithm.py' adding 'cctbx/xray/structure_factors/from_scatterers.py' adding 'cctbx/xray/structure_factors/from_scatterers_direct.py' adding 'cctbx/xray/structure_factors/from_scatterers_direct_parallel.py' adding 'cctbx/xray/structure_factors/from_scatterers_fft.py' adding 'cctbx/xray/structure_factors/global_counters.py' adding 'cctbx/xray/structure_factors/gradient_flags.py' adding 'cctbx/xray/structure_factors/gradients.py' adding 'cctbx/xray/structure_factors/gradients_base.py' adding 'cctbx/xray/structure_factors/gradients_direct.py' adding 'cctbx/xray/structure_factors/gradients_fft.py' adding 'cctbx/xray/structure_factors/manager.py' adding 'cctbx/xray/structure_factors/misc.py' adding 'cctbx/xray/targets/__init__.py' adding 'cctbx/xray/targets/r1.py' adding 'cctbx/xray/targets/tst_r1.py' adding 'cctbx/xray/targets/tst_shelxl_wght_ls.py' adding 'cctbx-2023.12.dist-info/licenses/LICENSE.txt' adding 'cctbx_website/__init__.py' adding 'cctbx_website/libtbx_refresh.py' adding 'cctbx_website/run_tests.py' adding 'cctbx_website/command_line/__init__.py' adding 'cctbx_website/command_line/comment_to_docstring.py' adding 'cctbx_website/command_line/edit_for_boost.py' adding 'cctbx_website/command_line/edit_html.py' adding 'cctbx_website/command_line/extract_script_from_html_cctbx_doc.py' adding 'cctbx_website/command_line/run_pdoc_cctbx_api.py' adding 'cctbx_website/command_line/tst_comment_to_docstring.py' adding 'cctbx_website/regression/__init__.py' adding 'cctbx_website/regression/exercise.py' adding 'cctbx_website/regression/tst_10_doc_programming_tips_1.py' adding 'cctbx_website/regression/tst_11_script_1.py' adding 'cctbx_website/regression/tst_12_script_compare_ss.py' adding 'cctbx_website/regression/tst_13_script_ideal_ss.py' adding 'cctbx_website/regression/tst_14_script_lbfgs_no_curvature.py' adding 'cctbx_website/regression/tst_15_doc_models_hierarchy.py' adding 'cctbx_website/regression/tst_16_script_lbfgs_with_curvature.py' adding 'cctbx_website/regression/tst_17_script_rfactors.py' adding 'cctbx_website/regression/tst_18_doc_programming_tips_2.py' adding 'cctbx_website/regression/tst_19_doc_programming_tips_3.py' adding 'cctbx_website/regression/tst_1_template.py' adding 'cctbx_website/regression/tst_2_doc_hlo_intro.py' adding 'cctbx_website/regression/tst_3_doc_hlo_model_manager.py' adding 'cctbx_website/regression/tst_4_doc_hlo_data_manager.py' adding 'cctbx_website/regression/tst_5_doc_hlo_map_manager.py' adding 'cctbx_website/regression/tst_6_doc_hlo_model_map_manager.py' adding 'cctbx_website/regression/tst_7_doc_low_flex_advanced.py' adding 'cctbx_website/regression/tst_8_doc_maps_intro.py' adding 'cctbx_website/regression/tst_9_doc_maps_boxing.py' adding 'cctbx_website/regression/tst_py_from_html.py' adding 'cma_es/__init__.py' adding 'cma_es/cma_es_interface.py' adding 'cma_es/run_tests.py' adding 'cma_es/tst_cma_es.py' adding 'cootbx/__init__.py' adding 'cootbx/hydrogens_button.py' adding 'cootbx/interactive_edit.py' adding 'cootbx/ligand_checklist.py' adding 'cootbx/simple_zoom_list.py' adding 'cootbx/validation_lists.py' adding 'cootbx/view_refinement.py' adding 'cootbx/watch_file.py' adding 'cootbx/xmlrpc_server.py' adding 'fable/__init__.py' adding 'fable/cout.py' adding 'fable/equivalence.py' adding 'fable/intrinsics.py' adding 'fable/read.py' adding 'fable/run_tests.py' adding 'fable/simple_compilation.py' adding 'fable/tokenization.py' adding 'fable/tst_cout.py' adding 'fable/tst_cout_compile.py' adding 'fable/tst_equivalence.py' adding 'fable/tst_ext.py' adding 'fable/tst_read.py' adding 'fable/utils.py' adding 'fable/command_line/__init__.py' adding 'fable/command_line/cout.py' adding 'fable/command_line/fem_include_search_paths.py' adding 'fable/command_line/insert_write_at_start_of_each_procedure.py' adding 'fable/command_line/read.py' adding 'fable/command_line/show_calls.py' adding 'fable/command_line/split.py' adding 'fast_linalg/__init__.py' adding 'fftw3tbx/__init__.py' adding 'fftw3tbx/libtbx_refresh.py' adding 'fftw3tbx/tst_ext.py' adding 'gltbx/__init__.py' adding 'gltbx/extract_opengl_specs.py' adding 'gltbx/fonts.py' adding 'gltbx/generate_defines_bpl.py' adding 'gltbx/generate_fonts_ucs_cpp.py' adding 'gltbx/generate_functions_bpl.py' adding 'gltbx/gl.py' adding 'gltbx/gl_managed.py' adding 'gltbx/glu.py' adding 'gltbx/images.py' adding 'gltbx/libtbx_refresh.py' adding 'gltbx/quadrics.py' adding 'gltbx/run_tests.py' adding 'gltbx/tst.py' adding 'gltbx/tst_ellipsoids.py' adding 'gltbx/tst_fonts.py' adding 'gltbx/tst_viewer_utils.py' adding 'gltbx/util.py' adding 'gltbx/viewer_utils.py' adding 'gltbx/wx_cube.py' adding 'gltbx/wx_ellipsoids_test.py' adding 'gltbx/wx_motion_on_tab.py' adding 'gltbx/wx_scene.py' adding 'gltbx/wx_viewer.py' adding 'gltbx/wx_viewer_example.py' adding 'gltbx/wx_viewer_leapmotion.py' adding 'gltbx/wx_viewers_images.py' adding 'gltbx/command_line/__init__.py' adding 'gltbx/command_line/try_imports.py' adding 'iotbx/__init__.py' adding 'iotbx/builders.py' adding 'iotbx/builders_depending_on_smtbx.py' adding 'iotbx/cif_mtz_data_labels.py' adding 'iotbx/cli_parser.py' adding 'iotbx/crystal_symmetry_from_any.py' adding 'iotbx/csv_utils.py' adding 'iotbx/data_plots.py' adding 'iotbx/extract_xtal_data.py' adding 'iotbx/file_reader.py' adding 'iotbx/format.py' adding 'iotbx/libtbx_refresh.py' adding 'iotbx/logfiles.py' adding 'iotbx/map_manager.py' adding 'iotbx/map_model_manager.py' adding 'iotbx/map_tools.py' adding 'iotbx/merging_statistics.py' adding 'iotbx/mtrix_biomt.py' adding 'iotbx/option_parser.py' adding 'iotbx/phases.py' adding 'iotbx/phil.py' adding 'iotbx/poscar.py' adding 'iotbx/pymol.py' adding 'iotbx/ranges.py' adding 'iotbx/reflection_file_converter.py' adding 'iotbx/reflection_file_editor.py' adding 'iotbx/reflection_file_reader.py' adding 'iotbx/reflection_file_utils.py' adding 'iotbx/run_tests.py' adding 'iotbx/simple_parser.py' adding 'iotbx/symmetry.py' adding 'iotbx/table_one.py' adding 'iotbx/wildcard.py' adding 'iotbx/PrettyPrint/__init__.py' adding 'iotbx/PrettyPrint/tables.py' adding 'iotbx/bioinformatics/__init__.py' adding 'iotbx/bioinformatics/alignment_as_hsearch.py' adding 'iotbx/bioinformatics/ebi_wu_blast_xml.py' adding 'iotbx/bioinformatics/homologues.py' adding 'iotbx/bioinformatics/local_blast.py' adding 'iotbx/bioinformatics/ncbi_blast_xml.py' adding 'iotbx/bioinformatics/pdb_info.py' adding 'iotbx/bioinformatics/pubmed.py' adding 'iotbx/bioinformatics/structure.py' adding 'iotbx/bioinformatics/xmlbuild.py' adding 'iotbx/ccp4_map/__init__.py' adding 'iotbx/ccp4_map/crystal_symmetry_from_ccp4_map.py' adding 'iotbx/ccp4_map/tst.py' adding 'iotbx/cif/__init__.py' adding 'iotbx/cif/builders.py' adding 'iotbx/cif/citations.py' adding 'iotbx/cif/cod_tools.py' adding 'iotbx/cif/crystal_symmetry_from_cif.py' adding 'iotbx/cif/errors.py' adding 'iotbx/cif/geometry.py' adding 'iotbx/cif/model.py' adding 'iotbx/cif/restraint_file_merge.py' adding 'iotbx/cif/restraints.py' adding 'iotbx/cif/validation.py' adding 'iotbx/cns/__init__.py' adding 'iotbx/cns/crystal_symmetry_from_inp.py' adding 'iotbx/cns/crystal_symmetry_from_sdb.py' adding 'iotbx/cns/crystal_symmetry_utils.py' adding 'iotbx/cns/index_fobs_sigma_reader.py' adding 'iotbx/cns/miller_array.py' adding 'iotbx/cns/pdb_remarks.py' adding 'iotbx/cns/reflection_reader.py' adding 'iotbx/cns/sdb_reader.py' adding 'iotbx/cns/sdb_writer.py' adding 'iotbx/cns/space_group_symbols.py' adding 'iotbx/cns/tst_cns.py' adding 'iotbx/cns/xray_structure.py' adding 'iotbx/command_line/__init__.py' adding 'iotbx/command_line/biomt_reconstruction.py' adding 'iotbx/command_line/blast_pdb.py' adding 'iotbx/command_line/build_phil_cache.py' adding 'iotbx/command_line/cbf_read.py' adding 'iotbx/command_line/cif.as_miller_arrays.py' adding 'iotbx/command_line/cif.as_xray_structure.py' adding 'iotbx/command_line/cif.validate.py' adding 'iotbx/command_line/cif_as_pdb.py' adding 'iotbx/command_line/cns.reflection_reader.py' adding 'iotbx/command_line/cns.sdb_reader.py' adding 'iotbx/command_line/cns.transfer_crystal_symmetry.py' adding 'iotbx/command_line/cns_as_mtz.py' adding 'iotbx/command_line/crystal_symmetry_from_any.py' adding 'iotbx/command_line/csv_as_mtz.py' adding 'iotbx/command_line/dano_as_amplitudes.py' adding 'iotbx/command_line/detector_image_as_png.py' adding 'iotbx/command_line/distance_least_squares.py' adding 'iotbx/command_line/dtrek.to_cns.py' adding 'iotbx/command_line/effective_resolution.py' adding 'iotbx/command_line/emma.py' adding 'iotbx/command_line/explore_metric_symmetry.py' adding 'iotbx/command_line/export_scalepack_unmerged.py' adding 'iotbx/command_line/file_reader.py' adding 'iotbx/command_line/flip_symmetric_amino_acids.py' adding 'iotbx/command_line/french_wilson.py' adding 'iotbx/command_line/get_pubmed_citation.py' adding 'iotbx/command_line/lattice_symmetry.py' adding 'iotbx/command_line/merging_statistics.py' adding 'iotbx/command_line/mtrix_reconstruction.py' adding 'iotbx/command_line/mtz.dump.py' adding 'iotbx/command_line/mtz_as_cif.py' adding 'iotbx/command_line/patterson_map.py' adding 'iotbx/command_line/pdb.as_xray_structure.py' adding 'iotbx/command_line/pdb.b_factor_stats.py' adding 'iotbx/command_line/pdb.box_around_molecule.py' adding 'iotbx/command_line/pdb.hierarchy.py' adding 'iotbx/command_line/pdb.insert_scale_records.py' adding 'iotbx/command_line/pdb.join_fragment_files.py' adding 'iotbx/command_line/pdb.link_as_geometry_restraints_edits.py' adding 'iotbx/command_line/pdb.print_sequence.py' adding 'iotbx/command_line/pdb.superpose_atoms_by_name.py' adding 'iotbx/command_line/pdb.superpose_centers_of_mass.py' adding 'iotbx/command_line/pdb_add_conformations.py' adding 'iotbx/command_line/pdb_as_cif.py' adding 'iotbx/command_line/pdb_as_fasta.py' adding 'iotbx/command_line/pdb_cif_conversion.py' adding 'iotbx/command_line/pdb_get_citation.py' adding 'iotbx/command_line/pdb_labels_comparison.py' adding 'iotbx/command_line/pdb_labels_diff.py' adding 'iotbx/command_line/pdb_remediator.py' adding 'iotbx/command_line/pdb_show_connectivity.py' adding 'iotbx/command_line/pdb_split_models.py' adding 'iotbx/command_line/phil.py' adding 'iotbx/command_line/poscar_as_xray_structure.py' adding 'iotbx/command_line/r_free_flags_accumulation.py' adding 'iotbx/command_line/r_free_flags_as_cns.py' adding 'iotbx/command_line/r_free_flags_completion_simple.py' adding 'iotbx/command_line/reflection_file_converter.py' adding 'iotbx/command_line/reflection_file_editor.py' adding 'iotbx/command_line/reflection_file_reader.py' adding 'iotbx/command_line/reflection_statistics.py' adding 'iotbx/command_line/reindex.py' adding 'iotbx/command_line/shelx.as_cif.py' adding 'iotbx/command_line/shelx.as_xray_structure.py' adding 'iotbx/command_line/shelx.dump_as_python.py' adding 'iotbx/command_line/show_distances.py' adding 'iotbx/command_line/show_systematic_absences.py' adding 'iotbx/command_line/simple_map_coefficients.py' adding 'iotbx/command_line/sort_atoms.py' adding 'iotbx/command_line/split_data_cif.py' adding 'iotbx/command_line/symmetry_search.py' adding 'iotbx/command_line/unique_with_biomt.py' adding 'iotbx/command_line/xplor.map.show_summary.py' adding 'iotbx/data_manager/__init__.py' adding 'iotbx/data_manager/common.py' adding 'iotbx/data_manager/map_coefficients.py' adding 'iotbx/data_manager/miller_array.py' adding 'iotbx/data_manager/model.py' adding 'iotbx/data_manager/ncs_spec.py' adding 'iotbx/data_manager/phil.py' adding 'iotbx/data_manager/real_map.py' adding 'iotbx/data_manager/restraint.py' adding 'iotbx/data_manager/sequence.py' adding 'iotbx/detectors/__init__.py' adding 'iotbx/detectors/active_area_filter.py' adding 'iotbx/detectors/adsc.py' adding 'iotbx/detectors/adsc_minicbf.py' adding 'iotbx/detectors/adsc_module.py' adding 'iotbx/detectors/beam_center_convention.py' adding 'iotbx/detectors/bruker.py' adding 'iotbx/detectors/cbf.py' adding 'iotbx/detectors/cspad_detector_formats.py' adding 'iotbx/detectors/detectorbase.py' adding 'iotbx/detectors/dtrek.py' adding 'iotbx/detectors/edf.py' adding 'iotbx/detectors/eiger.py' adding 'iotbx/detectors/eiger_minicbf.py' adding 'iotbx/detectors/generic_detector.py' adding 'iotbx/detectors/hamamatsu.py' adding 'iotbx/detectors/image_from_http_request.py' adding 'iotbx/detectors/macscience.py' adding 'iotbx/detectors/mar.py' adding 'iotbx/detectors/marIP.py' adding 'iotbx/detectors/noir.py' adding 'iotbx/detectors/npy.py' adding 'iotbx/detectors/pilatus_minicbf.py' adding 'iotbx/detectors/pilatus_slice.py' adding 'iotbx/detectors/raxis.py' adding 'iotbx/detectors/raxis_nonsquare.py' adding 'iotbx/detectors/raxisbase.py' adding 'iotbx/detectors/saturn.py' adding 'iotbx/detectors/test_mar.py' adding 'iotbx/detectors/test_raxis2.py' adding 'iotbx/detectors/tst_adsc.py' adding 'iotbx/detectors/tst_cbf_comp_read_meth.py' adding 'iotbx/detectors/tst_debug_write.py' adding 'iotbx/detectors/tst_detectors.py' adding 'iotbx/detectors/tst_py_cbf.py' adding 'iotbx/detectors/url_support.py' adding 'iotbx/detectors/context/__init__.py' adding 'iotbx/detectors/context/camera_convention.py' adding 'iotbx/detectors/context/config_detector.py' adding 'iotbx/detectors/context/endstation.py' adding 'iotbx/detectors/context/endstation_max_iv_trial.py' adding 'iotbx/detectors/context/spot_xy_convention.py' adding 'iotbx/detectors/util/__init__.py' adding 'iotbx/detectors/util/filters.py' adding 'iotbx/dsn6/__init__.py' adding 'iotbx/dsn6/tst.py' adding 'iotbx/dtrek/__init__.py' adding 'iotbx/dtrek/crystal_symmetry_from_ref.py' adding 'iotbx/dtrek/dtrek_symmetry_dict.py' adding 'iotbx/dtrek/reflnlist_reader.py' adding 'iotbx/examples/__init__.py' adding 'iotbx/examples/direct_methods_light.py' adding 'iotbx/examples/libtbx_phil_examples.py' adding 'iotbx/examples/mtz_convert_free_to_work.py' adding 'iotbx/examples/mtz_free_flipper.py' adding 'iotbx/examples/pdb_hierarchy.py' adding 'iotbx/examples/pdb_shake.py' adding 'iotbx/examples/pdb_split_chains.py' adding 'iotbx/examples/pdb_symmetry_copies.py' adding 'iotbx/examples/pdb_tardy_conf_sampling_simple.py' adding 'iotbx/examples/pdb_to_map_simple.py' adding 'iotbx/examples/pdbx_mmcif_tutorial.py' adding 'iotbx/examples/prepare_model_for_rsr.py' adding 'iotbx/examples/recalculate_phenix_refine_r_factors.py' adding 'iotbx/examples/shelx_latt_sym_to_space_group_symbol.py' adding 'iotbx/examples/tst_mtz_free_flipper.py' adding 'iotbx/examples/pdb_truncate_to_ala/__init__.py' adding 'iotbx/examples/pdb_truncate_to_ala/tst.py' adding 'iotbx/examples/pdb_truncate_to_ala/v0_getting_started.py' adding 'iotbx/examples/pdb_truncate_to_ala/v1_loop_over_atoms.py' adding 'iotbx/examples/pdb_truncate_to_ala/v2_simple.py' adding 'iotbx/examples/pdb_truncate_to_ala/v3_better.py' adding 'iotbx/examples/pdb_truncate_to_ala/v4_with_bells_and_whistles.py' adding 'iotbx/fullprof/__init__.py' adding 'iotbx/fullprof/read_pcr.py' adding 'iotbx/fullprof/write_pcr.py' adding 'iotbx/gui_tools/__init__.py' adding 'iotbx/gui_tools/cif_conversions.py' adding 'iotbx/gui_tools/import_data_and_flags.py' adding 'iotbx/gui_tools/models.py' adding 'iotbx/gui_tools/reflections.py' adding 'iotbx/gui_tools/tst.py' adding 'iotbx/kriber/__init__.py' adding 'iotbx/kriber/strudat.py' adding 'iotbx/kriber/tst_strudat.py' adding 'iotbx/mrcfile/__init__.py' adding 'iotbx/mrcfile/crystal_symmetry_from_ccp4_map.py' adding 'iotbx/mtz/__init__.py' adding 'iotbx/mtz/crystal_symmetry_from_mtz.py' adding 'iotbx/mtz/extract_from_symmetry_lib.py' adding 'iotbx/mtz/tst.py' adding 'iotbx/mtz/tst_dano.py' adding 'iotbx/mtz/tst_ext.py' adding 'iotbx/mtz/tst_extract_from_symmetry_lib.py' adding 'iotbx/mtz/tst_miller_dict.py' adding 'iotbx/mtz/tst_unmerged.py' adding 'iotbx/ncs/__init__.py' adding 'iotbx/pdb/__init__.py' adding 'iotbx/pdb/aa_utils.py' adding 'iotbx/pdb/amino_acid_codes.py' adding 'iotbx/pdb/atom_name_interpretation.py' adding 'iotbx/pdb/atom_selection.py' adding 'iotbx/pdb/cryst1_interpretation.py' adding 'iotbx/pdb/crystal_symmetry_from_pdb.py' adding 'iotbx/pdb/download.py' adding 'iotbx/pdb/experiment_type.py' adding 'iotbx/pdb/extract_rfactors_resolutions_sigma.py' adding 'iotbx/pdb/fetch.py' adding 'iotbx/pdb/forward_compatible_pdb_cif_conversion.py' adding 'iotbx/pdb/hierarchy.py' adding 'iotbx/pdb/hybrid_36.py' adding 'iotbx/pdb/misc_records_output.py' adding 'iotbx/pdb/mmcif.py' adding 'iotbx/pdb/modified_aa_names.py' adding 'iotbx/pdb/modified_rna_dna_names.py' adding 'iotbx/pdb/nucleic_acid_codes.py' adding 'iotbx/pdb/pdb_v3_cif_conversion.py' adding 'iotbx/pdb/pdbe.py' adding 'iotbx/pdb/rcsb.py' adding 'iotbx/pdb/records.py' adding 'iotbx/pdb/remark_290_interpretation.py' adding 'iotbx/pdb/remark_2_interpretation.py' adding 'iotbx/pdb/remark_3_interpretation.py' adding 'iotbx/pdb/rna_dna_detection.py' adding 'iotbx/pdb/secondary_structure.py' adding 'iotbx/pdb/tst_atom_name_interpretation.py' adding 'iotbx/pdb/tst_atom_selection.py' adding 'iotbx/pdb/tst_atom_selection_string.py' adding 'iotbx/pdb/tst_ext.py' adding 'iotbx/pdb/tst_extract_rfactors_resolutions_sigma.py' adding 'iotbx/pdb/tst_hierarchy.py' adding 'iotbx/pdb/tst_hierarchy_atom_sort.py' adding 'iotbx/pdb/tst_hierarchy_flip_symmetric.py' adding 'iotbx/pdb/tst_hierarchy_flip_symmetric_2.py' adding 'iotbx/pdb/tst_mmcif.py' adding 'iotbx/pdb/tst_mmcif_hierarchy.py' adding 'iotbx/pdb/tst_mmcif_hierarchy_2.py' adding 'iotbx/pdb/tst_pdb.py' adding 'iotbx/pdb/tst_read_mtrix_records_from_cif.py' adding 'iotbx/pdb/tst_rna_dna_atom_names.py' adding 'iotbx/pdb/tst_secondary_structure.py' adding 'iotbx/pdb/tst_secondary_structure_2.py' adding 'iotbx/pdb/tst_tls.py' adding 'iotbx/pdb/tst_utils.py' adding 'iotbx/pdb/utils.py' adding 'iotbx/pdb/web_service_api.py' adding 'iotbx/pdb/xray_structure.py' adding 'iotbx/pdb/remediation/__init__.py' adding 'iotbx/pdb/remediation/remediator.py' adding 'iotbx/pdb/remediation/tst_remediator.py' adding 'iotbx/programs/__init__.py' adding 'iotbx/programs/box_around_molecule.py' adding 'iotbx/programs/split_data_cif.py' adding 'iotbx/programs/unique_with_biomt.py' adding 'iotbx/regression/__init__.py' adding 'iotbx/regression/tst_add_conformations.py' adding 'iotbx/regression/tst_all_chain_ids.py' adding 'iotbx/regression/tst_atom_selections_10k.py' adding 'iotbx/regression/tst_bioinformatics.py' adding 'iotbx/regression/tst_box_around_molecule.py' adding 'iotbx/regression/tst_cif_1.py' adding 'iotbx/regression/tst_cif_as_pdb_1atom.py' adding 'iotbx/regression/tst_cli_parser.py' adding 'iotbx/regression/tst_crystal_symmetry_from_any.py' adding 'iotbx/regression/tst_csv_utils.py' adding 'iotbx/regression/tst_data_manager.py' adding 'iotbx/regression/tst_data_plots.py' adding 'iotbx/regression/tst_examples.py' adding 'iotbx/regression/tst_export_scalepack_unmerged.py' adding 'iotbx/regression/tst_extract_xtal_data.py' adding 'iotbx/regression/tst_fetch.py' adding 'iotbx/regression/tst_file_reader.py' adding 'iotbx/regression/tst_generate_n_char_string.py' adding 'iotbx/regression/tst_group_rounding.py' adding 'iotbx/regression/tst_hierarchy_altlocs.py' adding 'iotbx/regression/tst_hierarchy_copy_select.py' adding 'iotbx/regression/tst_hierarchy_forward_compatible_pdb.py' adding 'iotbx/regression/tst_hierarchy_id_str.py' adding 'iotbx/regression/tst_hierarchy_long_chain_ids_1.py' adding 'iotbx/regression/tst_hierarchy_long_resname_1.py' adding 'iotbx/regression/tst_hierarchy_long_resname_2.py' adding 'iotbx/regression/tst_hierarchy_long_resname_3.py' adding 'iotbx/regression/tst_hierarchy_long_resname_4.py' adding 'iotbx/regression/tst_hierarchy_merge_atoms_at_end_to_residues.py' adding 'iotbx/regression/tst_hierarchy_occupancies_rounding.py' adding 'iotbx/regression/tst_hierarchy_pdb_v3.py' adding 'iotbx/regression/tst_lattice_symmetry.py' adding 'iotbx/regression/tst_map_manager.py' adding 'iotbx/regression/tst_map_manager_2.py' adding 'iotbx/regression/tst_map_manager_wrapping.py' adding 'iotbx/regression/tst_map_model_manager.py' adding 'iotbx/regression/tst_map_model_manager_2.py' adding 'iotbx/regression/tst_map_model_manager_3.py' adding 'iotbx/regression/tst_map_model_manager_4.py' adding 'iotbx/regression/tst_map_model_manager_9_remove_origin_shift_and_unit_cell_crystal_symmetry.py' adding 'iotbx/regression/tst_map_model_manager_9_remove_origin_shift_and_unit_cell_crystal_symmetry_cif.py' adding 'iotbx/regression/tst_map_model_manager_call_consistency.py' adding 'iotbx/regression/tst_map_model_manager_cif.py' adding 'iotbx/regression/tst_map_model_manager_external_sharpening_7.py' adding 'iotbx/regression/tst_map_model_manager_half_map_sharpening_6.py' adding 'iotbx/regression/tst_map_model_manager_local_resolution_10.py' adding 'iotbx/regression/tst_map_model_manager_model_sharpening_5.py' adding 'iotbx/regression/tst_map_model_manager_model_sharpening_5_cif.py' adding 'iotbx/regression/tst_map_model_manager_tls_from_map_8.py' adding 'iotbx/regression/tst_map_tools.py' adding 'iotbx/regression/tst_merging_statistics.py' adding 'iotbx/regression/tst_miller_sort_asu.py' adding 'iotbx/regression/tst_mmcif_input.py' adding 'iotbx/regression/tst_mmcif_multimodel.py' adding 'iotbx/regression/tst_mmcif_segids.py' adding 'iotbx/regression/tst_mmcif_to_from_hierarchy.py' adding 'iotbx/regression/tst_mrc_io.py' adding 'iotbx/regression/tst_mtz_as_cif.py' adding 'iotbx/regression/tst_patterson.py' adding 'iotbx/regression/tst_pdb_as_cif.py' adding 'iotbx/regression/tst_pdb_as_fasta.py' adding 'iotbx/regression/tst_pdb_cif_cells.py' adding 'iotbx/regression/tst_pdb_cif_inputs.py' adding 'iotbx/regression/tst_pdb_link_records.py' adding 'iotbx/regression/tst_pdbx_mmcif_tutorial.py' adding 'iotbx/regression/tst_phases.py' adding 'iotbx/regression/tst_phil.py' adding 'iotbx/regression/tst_poscar.py' adding 'iotbx/regression/tst_reflection_file_editor.py' adding 'iotbx/regression/tst_reflection_file_reader.py' adding 'iotbx/regression/tst_reflection_file_utils.py' adding 'iotbx/regression/tst_reflection_statistics.py' adding 'iotbx/regression/tst_reindex.py' adding 'iotbx/regression/tst_restraints_merge.py' adding 'iotbx/regression/tst_selected_hierarchy_flip.py' adding 'iotbx/regression/tst_show_systematic_absences.py' adding 'iotbx/regression/tst_simple_map_coefficients.py' adding 'iotbx/regression/tst_simple_parser.py' adding 'iotbx/regression/tst_sort_atoms.py' adding 'iotbx/regression/tst_split_data_cif.py' adding 'iotbx/regression/tst_split_models.py' adding 'iotbx/regression/tst_symmetry.py' adding 'iotbx/regression/tst_wildcard.py' adding 'iotbx/regression/tst_xray_scale.py' adding 'iotbx/regression/utils.py' adding 'iotbx/regression/ncs/__init__.py' adding 'iotbx/regression/ncs/tst_mmcif_biomt_reduction_output.py' adding 'iotbx/regression/ncs/tst_mtrix_biomt_cmdl.py' adding 'iotbx/regression/ncs/tst_ncs.py' adding 'iotbx/regression/ncs/tst_ncs_groups_preprocessing.py' adding 'iotbx/regression/ncs/tst_ncs_input.py' adding 'iotbx/regression/ncs/tst_ncs_reordered_chains.py' adding 'iotbx/regression/ncs/tst_ncs_search_broken_chain.py' adding 'iotbx/regression/ncs/tst_ncs_search_ligs.py' adding 'iotbx/regression/ncs/tst_ncs_search_shortcut_1.py' adding 'iotbx/regression/ncs/tst_ncs_user_selections.py' adding 'iotbx/regression/ncs/tst_ncs_without_validation.py' adding 'iotbx/scalepack/__init__.py' adding 'iotbx/scalepack/crystal_symmetry_from_hkl.py' adding 'iotbx/scalepack/merge.py' adding 'iotbx/scalepack/no_merge_original_index.py' adding 'iotbx/scalepack/space_group_dictionary.py' adding 'iotbx/scalepack/tst_merge.py' adding 'iotbx/scalepack/tst_no_merge_original_index.py' adding 'iotbx/shelx/__init__.py' adding 'iotbx/shelx/crystal_symmetry_from_ins.py' adding 'iotbx/shelx/errors.py' adding 'iotbx/shelx/fcf.py' adding 'iotbx/shelx/fvar_encoding.py' adding 'iotbx/shelx/hklf.py' adding 'iotbx/shelx/lexer.py' adding 'iotbx/shelx/parsers.py' adding 'iotbx/shelx/tokens.py' adding 'iotbx/shelx/tst_fvar_encoding.py' adding 'iotbx/shelx/tst_hklf.py' adding 'iotbx/shelx/tst_lex_parse_build.py' adding 'iotbx/shelx/tst_writer.py' adding 'iotbx/shelx/write_ins.py' adding 'iotbx/shelx/writer.py' adding 'iotbx/solve/__init__.py' adding 'iotbx/solve/crystal_symmetry_from_inp.py' adding 'iotbx/solve/fpfm_reader.py' adding 'iotbx/xds/__init__.py' adding 'iotbx/xds/blank_cbf.py' adding 'iotbx/xds/correction.py' adding 'iotbx/xds/crystal_symmetry_from_hkl.py' adding 'iotbx/xds/gain_cbf.py' adding 'iotbx/xds/geometry.py' adding 'iotbx/xds/integrate_hkl.py' adding 'iotbx/xds/read_ascii.py' adding 'iotbx/xds/spot_xds.py' adding 'iotbx/xds/xds_cbf.py' adding 'iotbx/xds/xds_inp.py' adding 'iotbx/xds/xparm.py' adding 'iotbx/xplor/__init__.py' adding 'iotbx/xplor/crystal_symmetry_from_map.py' adding 'iotbx/xplor/ext.py' adding 'iotbx/xplor/map.py' adding 'iotbx/xplor/tst_xplormap.py' adding 'libtbx/__init__.py' adding 'libtbx/assert_utils.py' adding 'libtbx/binary_search.py' adding 'libtbx/callbacks.py' adding 'libtbx/citations.py' adding 'libtbx/clear_paths.py' adding 'libtbx/cli.py' adding 'libtbx/cluster.py' adding 'libtbx/clusterTests.py' adding 'libtbx/code_analysis.py' adding 'libtbx/complex_math.py' adding 'libtbx/configure.py' adding 'libtbx/console_utils.py' adding 'libtbx/containers.py' adding 'libtbx/cpp_function_name.py' adding 'libtbx/crossmingw.py' adding 'libtbx/dlite.py' adding 'libtbx/easy_mp.py' adding 'libtbx/easy_pickle.py' adding 'libtbx/easy_profile.py' adding 'libtbx/easy_run.py' adding 'libtbx/env_config.py' adding 'libtbx/file_clutter.py' adding 'libtbx/find_reference_cycles.py' adding 'libtbx/forward_compatibility.py' adding 'libtbx/introspection.py' adding 'libtbx/libtbx_refresh.py' adding 'libtbx/load_env.py' adding 'libtbx/log.py' adding 'libtbx/math_utils.py' adding 'libtbx/metric_prefixes.py' adding 'libtbx/mpi4py.py' adding 'libtbx/object_oriented_patterns.py' adding 'libtbx/objgraph.py' adding 'libtbx/option_parser.py' adding 'libtbx/path.py' adding 'libtbx/pkg_utils.py' adding 'libtbx/program_template.py' adding 'libtbx/progress.py' adding 'libtbx/pyframe.py' adding 'libtbx/pyplot.py' adding 'libtbx/python_code_parsing.py' adding 'libtbx/resource_monitor.py' adding 'libtbx/run_tests.py' adding 'libtbx/runtime_utils.py' adding 'libtbx/simplexml.py' adding 'libtbx/smart_open.py' adding 'libtbx/start_print_trace.py' adding 'libtbx/str_utils.py' adding 'libtbx/subprocess_with_fixes.py' adding 'libtbx/table_utils.py' adding 'libtbx/thread_utils.py' adding 'libtbx/topological_sort.py' adding 'libtbx/try_hello_world_c.py' adding 'libtbx/tst_add_docstrings_with_ai.py' adding 'libtbx/tst_binary_search.py' adding 'libtbx/tst_citations.py' adding 'libtbx/tst_containers.py' adding 'libtbx/tst_dlite.py' adding 'libtbx/tst_easy_mp.py' adding 'libtbx/tst_easy_mp_multicore.py' adding 'libtbx/tst_easy_mp_state.py' adding 'libtbx/tst_easy_pickle.py' adding 'libtbx/tst_find_unused_imports.py' adding 'libtbx/tst_fully_buffered_timeout.py' adding 'libtbx/tst_mahalanobis.py' adding 'libtbx/tst_math_utils.py' adding 'libtbx/tst_object_oriented_patterns.py' adding 'libtbx/tst_path.py' adding 'libtbx/tst_program_template.py' adding 'libtbx/tst_python_code_parsing.py' adding 'libtbx/tst_representation.py' adding 'libtbx/tst_run_tests_parallel_retry.py' adding 'libtbx/tst_run_tests_parallel_unique_dirs.py' adding 'libtbx/tst_runtime_utils.py' adding 'libtbx/tst_scheduling.py' adding 'libtbx/tst_str_utils.py' adding 'libtbx/tst_thread_utils.py' adding 'libtbx/tst_topological_sort.py' adding 'libtbx/tst_utils.py' adding 'libtbx/tst_version.py' adding 'libtbx/tst_word_index_generator.py' adding 'libtbx/tst_xmlrpc_utils.py' adding 'libtbx/utils.py' adding 'libtbx/version.py' adding 'libtbx/wingide.py' adding 'libtbx/word_index_generator.py' adding 'libtbx/xmlrpc_server_example.py' adding 'libtbx/xmlrpc_utils.py' adding 'libtbx/auto_build/__init__.py' adding 'libtbx/auto_build/bootstrap.py' adding 'libtbx/auto_build/create_cctbx_bundle_for_installer.py' adding 'libtbx/auto_build/create_installer.py' adding 'libtbx/auto_build/create_mac_app.py' adding 'libtbx/auto_build/create_mac_pkg.py' adding 'libtbx/auto_build/create_windows_exe.py' adding 'libtbx/auto_build/create_windows_installer.py' adding 'libtbx/auto_build/install_base_packages.py' adding 'libtbx/auto_build/install_conda.py' adding 'libtbx/auto_build/install_distribution.py' adding 'libtbx/auto_build/installer_utils.py' adding 'libtbx/auto_build/make_bundle.py' adding 'libtbx/auto_build/package_defs.py' adding 'libtbx/auto_build/plus_installer.py' adding 'libtbx/auto_build/regenerate_module_files.py' adding 'libtbx/auto_build/rpath.py' adding 'libtbx/auto_build/setup_installer.py' adding 'libtbx/auto_build/write_gui_dispatcher_include.py' adding 'libtbx/bundle/__init__.py' adding 'libtbx/bundle/copy_all.py' adding 'libtbx/bundle/copy_build_libtbx.py' adding 'libtbx/bundle/copy_runtime_sources.py' adding 'libtbx/bundle/install_bat.py' adding 'libtbx/bundle/install_csh.py' adding 'libtbx/bundle/utils.py' adding 'libtbx/command_line/__init__.py' adding 'libtbx/command_line/add_docstrings_with_ai.py' adding 'libtbx/command_line/analyse_code_comments.py' adding 'libtbx/command_line/any2unix.py' adding 'libtbx/command_line/assert_line_count.py' adding 'libtbx/command_line/assert_not_show_diff.py' adding 'libtbx/command_line/assert_stdin.py' adding 'libtbx/command_line/assert_stdin_contains_strings.py' adding 'libtbx/command_line/assert_stdin_ends_with.py' adding 'libtbx/command_line/bootstrap.py' adding 'libtbx/command_line/bundle_as_exe.py' adding 'libtbx/command_line/cctbx_chunk.py' adding 'libtbx/command_line/check_libcpp.py' adding 'libtbx/command_line/clean_clutter.py' adding 'libtbx/command_line/clear_paths.py' adding 'libtbx/command_line/create_cctbx_bundle_for_installer.py' adding 'libtbx/command_line/create_install_script_bat.py' adding 'libtbx/command_line/create_installer.py' adding 'libtbx/command_line/create_mac_app.py' adding 'libtbx/command_line/create_selfx.py' adding 'libtbx/command_line/create_unzipsfx.py' adding 'libtbx/command_line/create_windows_exe.py' adding 'libtbx/command_line/dtrace.py' adding 'libtbx/command_line/easy_qsub.py' adding 'libtbx/command_line/env_run.py' adding 'libtbx/command_line/epydoc_run.py' adding 'libtbx/command_line/extract_code_from_txt.py' adding 'libtbx/command_line/find_clutter.py' adding 'libtbx/command_line/find_files.py' adding 'libtbx/command_line/find_in_repositories.py' adding 'libtbx/command_line/find_old_style_classes.py' adding 'libtbx/command_line/find_pdb_mmcif_problems.py' adding 'libtbx/command_line/find_reserved_names.py' adding 'libtbx/command_line/find_under_build.py' adding 'libtbx/command_line/find_untested.py' adding 'libtbx/command_line/find_unused_imports.py' adding 'libtbx/command_line/find_unused_imports_crude.py' adding 'libtbx/command_line/git_avoid_merges.py' adding 'libtbx/command_line/help.py' adding 'libtbx/command_line/import_all_ext.py' adding 'libtbx/command_line/import_all_python.py' adding 'libtbx/command_line/install.py' adding 'libtbx/command_line/install_conda.py' adding 'libtbx/command_line/ipython_shell_start.py' adding 'libtbx/command_line/line_count.py' adding 'libtbx/command_line/list_files.py' adding 'libtbx/command_line/list_modules.py' adding 'libtbx/command_line/list_source_files_sorted_by_size.py' adding 'libtbx/command_line/make_dist.py' adding 'libtbx/command_line/make_sphinx_html.py' adding 'libtbx/command_line/nequal.py' adding 'libtbx/command_line/parallel_simple.py' adding 'libtbx/command_line/path_utility.py' adding 'libtbx/command_line/phil.py' adding 'libtbx/command_line/prime_factors_of.py' adding 'libtbx/command_line/printenv.py' adding 'libtbx/command_line/py_compile_all.py' adding 'libtbx/command_line/raise_exception_for_testing.py' adding 'libtbx/command_line/reindent.py' adding 'libtbx/command_line/remote_processing.py' adding 'libtbx/command_line/remove_tree.py' adding 'libtbx/command_line/remove_unused_imports.py' adding 'libtbx/command_line/resource_monitor_plot.py' adding 'libtbx/command_line/run_pickled_function.py' adding 'libtbx/command_line/run_tests_parallel.py' adding 'libtbx/command_line/scons.py' adding 'libtbx/command_line/seconds_since_the_epoch.py' adding 'libtbx/command_line/sge_available_slots.py' adding 'libtbx/command_line/sge_qstat_counts.py' adding 'libtbx/command_line/show_all_on_path.py' adding 'libtbx/command_line/show_bin_path.py' adding 'libtbx/command_line/show_build_options.py' adding 'libtbx/command_line/show_build_path.py' adding 'libtbx/command_line/show_but_no_repr.py' adding 'libtbx/command_line/show_commands.py' adding 'libtbx/command_line/show_date_and_time.py' adding 'libtbx/command_line/show_dist_paths.py' adding 'libtbx/command_line/show_env.py' adding 'libtbx/command_line/show_environ_usage.py' adding 'libtbx/command_line/show_full_command_path.py' adding 'libtbx/command_line/show_host_and_user.py' adding 'libtbx/command_line/show_include_paths.py' adding 'libtbx/command_line/show_lib_path.py' adding 'libtbx/command_line/show_module_dependencies.py' adding 'libtbx/command_line/show_number_of_processors.py' adding 'libtbx/command_line/show_numeric_version.py' adding 'libtbx/command_line/show_numpy_version.py' adding 'libtbx/command_line/show_python_dependencies.py' adding 'libtbx/command_line/show_python_sys_executable.py' adding 'libtbx/command_line/show_pythonpath.py' adding 'libtbx/command_line/show_repository_paths.py' adding 'libtbx/command_line/show_tests.py' adding 'libtbx/command_line/show_variable_names.py' adding 'libtbx/command_line/sphinx_build.py' adding 'libtbx/command_line/start_binary_bundle.py' adding 'libtbx/command_line/start_process.py' adding 'libtbx/command_line/wait_for_file.py' adding 'libtbx/development/__init__.py' adding 'libtbx/development/except_Exception.py' adding 'libtbx/development/timers.py' adding 'libtbx/development/xcode_build_phase.py' adding 'libtbx/langchain/__init__.py' adding 'libtbx/langchain/phenix_knowledge.py' adding 'libtbx/langchain/run_build_db.py' adding 'libtbx/langchain/run_inspect_db.py' adding 'libtbx/langchain/run_query_docs.py' adding 'libtbx/langchain/agent/__init__.py' adding 'libtbx/langchain/agent/advice_preprocessor.py' adding 'libtbx/langchain/agent/api_client.py' adding 'libtbx/langchain/agent/best_files_tracker.py' adding 'libtbx/langchain/agent/command_builder.py' adding 'libtbx/langchain/agent/command_postprocessor.py' adding 'libtbx/langchain/agent/config_loader.py' adding 'libtbx/langchain/agent/contract.py' adding 'libtbx/langchain/agent/directive_extractor.py' adding 'libtbx/langchain/agent/directive_validator.py' adding 'libtbx/langchain/agent/display_data_model.py' adding 'libtbx/langchain/agent/docs_tools.py' adding 'libtbx/langchain/agent/dry_run_manager.py' adding 'libtbx/langchain/agent/error_analyzer.py' adding 'libtbx/langchain/agent/error_classifier.py' adding 'libtbx/langchain/agent/event_formatter.py' adding 'libtbx/langchain/agent/event_log.py' adding 'libtbx/langchain/agent/failure_diagnoser.py' adding 'libtbx/langchain/agent/file_metadata.py' adding 'libtbx/langchain/agent/file_utils.py' adding 'libtbx/langchain/agent/format_validation.py' adding 'libtbx/langchain/agent/gate_evaluator.py' adding 'libtbx/langchain/agent/generate_logic_doc.py' adding 'libtbx/langchain/agent/generate_safety_docs.py' adding 'libtbx/langchain/agent/graph.py' adding 'libtbx/langchain/agent/graph_nodes.py' adding 'libtbx/langchain/agent/graph_state.py' adding 'libtbx/langchain/agent/hypothesis_evaluator.py' adding 'libtbx/langchain/agent/intent_classifier.py' adding 'libtbx/langchain/agent/kb_tags.py' adding 'libtbx/langchain/agent/log_section_extractor.py' adding 'libtbx/langchain/agent/memory.py' adding 'libtbx/langchain/agent/metric_evaluator.py' adding 'libtbx/langchain/agent/metrics_analyzer.py' adding 'libtbx/langchain/agent/nl_to_phil.py' adding 'libtbx/langchain/agent/pattern_manager.py' adding 'libtbx/langchain/agent/perceive_checks.py' adding 'libtbx/langchain/agent/phenix_utils.py' adding 'libtbx/langchain/agent/phil_validator.py' adding 'libtbx/langchain/agent/placement_checker.py' adding 'libtbx/langchain/agent/plan_generator.py' adding 'libtbx/langchain/agent/planner.py' adding 'libtbx/langchain/agent/program_registry.py' adding 'libtbx/langchain/agent/program_validator.py' adding 'libtbx/langchain/agent/rate_limit_handler.py' adding 'libtbx/langchain/agent/rules_selector.py' adding 'libtbx/langchain/agent/sanity_checker.py' adding 'libtbx/langchain/agent/session.py' adding 'libtbx/langchain/agent/session_tools.py' adding 'libtbx/langchain/agent/strategy_memory.py' adding 'libtbx/langchain/agent/structure_model.py' adding 'libtbx/langchain/agent/template_builder.py' adding 'libtbx/langchain/agent/thinking_agent.py' adding 'libtbx/langchain/agent/transport.py' adding 'libtbx/langchain/agent/tst_agent_enhancements.py' adding 'libtbx/langchain/agent/utils.py' adding 'libtbx/langchain/agent/validation_history.py' adding 'libtbx/langchain/agent/validation_inspector.py' adding 'libtbx/langchain/agent/workflow_engine.py' adding 'libtbx/langchain/agent/workflow_state.py' adding 'libtbx/langchain/agent/yaml_tools.py' adding 'libtbx/langchain/analysis/__init__.py' adding 'libtbx/langchain/analysis/agent_session_analyzer.py' adding 'libtbx/langchain/analysis/analyzer.py' adding 'libtbx/langchain/analysis/log_info.py' adding 'libtbx/langchain/analysis/state_extractor.py' adding 'libtbx/langchain/analysis/summarizer.py' adding 'libtbx/langchain/commands/__init__.py' adding 'libtbx/langchain/commands/base.py' adding 'libtbx/langchain/core/__init__.py' adding 'libtbx/langchain/core/llm.py' adding 'libtbx/langchain/core/types.py' adding 'libtbx/langchain/examples/__init__.py' adding 'libtbx/langchain/knowledge/__init__.py' adding 'libtbx/langchain/knowledge/api_schema.py' adding 'libtbx/langchain/knowledge/explanation_prompts.py' adding 'libtbx/langchain/knowledge/html_report_template.py' adding 'libtbx/langchain/knowledge/kb_loader.py' adding 'libtbx/langchain/knowledge/metric_patterns.py' adding 'libtbx/langchain/knowledge/phenix_programs.py' adding 'libtbx/langchain/knowledge/plan_schema.py' adding 'libtbx/langchain/knowledge/plan_template_loader.py' adding 'libtbx/langchain/knowledge/program_registration.py' adding 'libtbx/langchain/knowledge/prompts.py' adding 'libtbx/langchain/knowledge/prompts_hybrid.py' adding 'libtbx/langchain/knowledge/summary_display.py' adding 'libtbx/langchain/knowledge/thinking_prompts.py' adding 'libtbx/langchain/knowledge/yaml_loader.py' adding 'libtbx/langchain/rag/__init__.py' adding 'libtbx/langchain/rag/document_loader.py' adding 'libtbx/langchain/rag/retriever.py' adding 'libtbx/langchain/rag/vector_store.py' adding 'libtbx/langchain/strategies/__init__.py' adding 'libtbx/langchain/strategies/base.py' adding 'libtbx/langchain/tests/__init__.py' adding 'libtbx/langchain/tests/analyze_tutorial_runs.py' adding 'libtbx/langchain/tests/audit_phase_rename.py' adding 'libtbx/langchain/tests/run_all_tests.py' adding 'libtbx/langchain/tests/test_api_keys.py' adding 'libtbx/langchain/tests/tst_abort_message_all_stops.py' adding 'libtbx/langchain/tests/tst_action_item_1.py' adding 'libtbx/langchain/tests/tst_advice_preprocessing.py' adding 'libtbx/langchain/tests/tst_api_schema.py' adding 'libtbx/langchain/tests/tst_audit_fixes.py' adding 'libtbx/langchain/tests/tst_autosol_bugs.py' adding 'libtbx/langchain/tests/tst_backward_compat.py' adding 'libtbx/langchain/tests/tst_best_files_tracker.py' adding 'libtbx/langchain/tests/tst_command_builder.py' adding 'libtbx/langchain/tests/tst_contract_compliance.py' adding 'libtbx/langchain/tests/tst_copies_tracking.py' adding 'libtbx/langchain/tests/tst_decision_flow.py' adding 'libtbx/langchain/tests/tst_diagnosed_failure_stop.py' adding 'libtbx/langchain/tests/tst_directive_extractor.py' adding 'libtbx/langchain/tests/tst_directive_validator.py' adding 'libtbx/langchain/tests/tst_directives_integration.py' adding 'libtbx/langchain/tests/tst_display_data_model.py' adding 'libtbx/langchain/tests/tst_docs_tools.py' adding 'libtbx/langchain/tests/tst_dry_run.py' adding 'libtbx/langchain/tests/tst_error_analyzer.py' adding 'libtbx/langchain/tests/tst_error_classifier.py' adding 'libtbx/langchain/tests/tst_event_formatter_file_categories.py' adding 'libtbx/langchain/tests/tst_event_system.py' adding 'libtbx/langchain/tests/tst_explanation_prompts.py' adding 'libtbx/langchain/tests/tst_fabricated_stop_condition.py' adding 'libtbx/langchain/tests/tst_file_categorization.py' adding 'libtbx/langchain/tests/tst_file_utils.py' adding 'libtbx/langchain/tests/tst_fix_verification.py' adding 'libtbx/langchain/tests/tst_gate_evaluator.py' adding 'libtbx/langchain/tests/tst_halfmap_sigmaa_inventory.py' adding 'libtbx/langchain/tests/tst_hardcoded_cleanup.py' adding 'libtbx/langchain/tests/tst_history_analysis.py' adding 'libtbx/langchain/tests/tst_hypothesis_evaluator.py' adding 'libtbx/langchain/tests/tst_integration.py' adding 'libtbx/langchain/tests/tst_intent_classifier.py' adding 'libtbx/langchain/tests/tst_langchain_tools.py' adding 'libtbx/langchain/tests/tst_log_extractor.py' adding 'libtbx/langchain/tests/tst_metric_patterns.py' adding 'libtbx/langchain/tests/tst_metrics_analyzer.py' adding 'libtbx/langchain/tests/tst_mtz_crosscheck.py' adding 'libtbx/langchain/tests/tst_mtz_phases_session_blocking.py' adding 'libtbx/langchain/tests/tst_n_bugs.py' adding 'libtbx/langchain/tests/tst_new_programs.py' adding 'libtbx/langchain/tests/tst_old_client_compat.py' adding 'libtbx/langchain/tests/tst_pattern_manager.py' adding 'libtbx/langchain/tests/tst_perceive_stop_checks.py' adding 'libtbx/langchain/tests/tst_phase0_static_audit.py' adding 'libtbx/langchain/tests/tst_phase1_contract_gaps.py' adding 'libtbx/langchain/tests/tst_phase2_path_consistency.py' adding 'libtbx/langchain/tests/tst_phase3_bug5.py' adding 'libtbx/langchain/tests/tst_phase3_serialization_symmetry.py' adding 'libtbx/langchain/tests/tst_phase4_history_flags.py' adding 'libtbx/langchain/tests/tst_phase5_error_classification.py' adding 'libtbx/langchain/tests/tst_phase6_category_consumer.py' adding 'libtbx/langchain/tests/tst_phase7_routing_simulation.py' adding 'libtbx/langchain/tests/tst_phase8_command_building.py' adding 'libtbx/langchain/tests/tst_phase9_llm_perturbation.py' adding 'libtbx/langchain/tests/tst_phaser_multimodel.py' adding 'libtbx/langchain/tests/tst_phil_validation.py' adding 'libtbx/langchain/tests/tst_plan_generator.py' adding 'libtbx/langchain/tests/tst_plan_schema.py' adding 'libtbx/langchain/tests/tst_program_registration.py' adding 'libtbx/langchain/tests/tst_sanity_checker.py' adding 'libtbx/langchain/tests/tst_scenario_tracer.py' adding 'libtbx/langchain/tests/tst_session_directives.py' adding 'libtbx/langchain/tests/tst_session_summary.py' adding 'libtbx/langchain/tests/tst_session_tools.py' adding 'libtbx/langchain/tests/tst_shared_code_imports.py' adding 'libtbx/langchain/tests/tst_silent_stop_abort_messages.py' adding 'libtbx/langchain/tests/tst_state_serialization.py' adding 'libtbx/langchain/tests/tst_stop_condition_fix.py' adding 'libtbx/langchain/tests/tst_stop_feedback_api_plan_command.py' adding 'libtbx/langchain/tests/tst_stop_reason_codes.py' adding 'libtbx/langchain/tests/tst_stop_reason_prompt.py' adding 'libtbx/langchain/tests/tst_strategy_memory.py' adding 'libtbx/langchain/tests/tst_structure_model.py' adding 'libtbx/langchain/tests/tst_summary_display.py' adding 'libtbx/langchain/tests/tst_template.py' adding 'libtbx/langchain/tests/tst_thinking_agent.py' adding 'libtbx/langchain/tests/tst_thinking_defense.py' adding 'libtbx/langchain/tests/tst_transport.py' adding 'libtbx/langchain/tests/tst_utils.py' adding 'libtbx/langchain/tests/tst_v112_13_fixes.py' adding 'libtbx/langchain/tests/tst_validate_file_overrides.py' adding 'libtbx/langchain/tests/tst_validation_history.py' adding 'libtbx/langchain/tests/tst_workflow_complete_stop.py' adding 'libtbx/langchain/tests/tst_workflow_state.py' adding 'libtbx/langchain/tests/tst_yaml_config.py' adding 'libtbx/langchain/tests/tst_yaml_tools.py' adding 'libtbx/langchain/tests/integration/__init__.py' adding 'libtbx/langchain/utils/__init__.py' adding 'libtbx/langchain/utils/query.py' adding 'libtbx/langchain/utils/run_utils.py' adding 'libtbx/langchain/utils/text_processing.py' adding 'libtbx/langchain/validation/__init__.py' adding 'libtbx/langchain/validation/base.py' adding 'libtbx/langchain/validation/core_validator.py' adding 'libtbx/langchain/validation/mtz_utils.py' adding 'libtbx/langchain/validation/phenix_refine.py' adding 'libtbx/langchain/validation/registry.py' adding 'libtbx/phil/__init__.py' adding 'libtbx/phil/command_line.py' adding 'libtbx/phil/experimental.py' adding 'libtbx/phil/gui_objects.py' adding 'libtbx/phil/interface.py' adding 'libtbx/phil/parser.py' adding 'libtbx/phil/tokenizer.py' adding 'libtbx/phil/tst.py' adding 'libtbx/phil/tst_experimental.py' adding 'libtbx/phil/tst_interface.py' adding 'libtbx/phil/tst_tokenizer.py' adding 'libtbx/program_utils/__init__.py' adding 'libtbx/program_utils/result.py' adding 'libtbx/program_utils/statistics_info.py' adding 'libtbx/queuing_system_utils/__init__.py' adding 'libtbx/queuing_system_utils/communication.py' adding 'libtbx/queuing_system_utils/generic.py' adding 'libtbx/queuing_system_utils/looping.py' adding 'libtbx/queuing_system_utils/lsf.py' adding 'libtbx/queuing_system_utils/pbs_utils.py' adding 'libtbx/queuing_system_utils/remote.py' adding 'libtbx/queuing_system_utils/scheduling.py' adding 'libtbx/queuing_system_utils/scheduling_helpers.py' adding 'libtbx/queuing_system_utils/sge_utils.py' adding 'libtbx/queuing_system_utils/tst.py' adding 'libtbx/queuing_system_utils/processing/__init__.py' adding 'libtbx/queuing_system_utils/processing/errors.py' adding 'libtbx/queuing_system_utils/processing/polling.py' adding 'libtbx/queuing_system_utils/processing/status.py' adding 'libtbx/queuing_system_utils/processing/submission.py' adding 'libtbx/queuing_system_utils/processing/transfer.py' adding 'libtbx/queuing_system_utils/processing/util.py' adding 'libtbx/scheduling/__init__.py' adding 'libtbx/scheduling/cluster_handler.py' adding 'libtbx/scheduling/file_queue.py' adding 'libtbx/scheduling/job_scheduler.py' adding 'libtbx/scheduling/mainthread.py' adding 'libtbx/scheduling/mp_handler.py' adding 'libtbx/scheduling/parallel_for.py' adding 'libtbx/scheduling/philgen.py' adding 'libtbx/scheduling/process_pool.py' adding 'libtbx/scheduling/result.py' adding 'libtbx/scheduling/shared_resource.py' adding 'libtbx/scheduling/socket_queue.py' adding 'libtbx/scheduling/stacktrace.py' adding 'libtbx/scheduling/thread_handler.py' adding 'libtbx/server/FileClient.py' adding 'libtbx/server/FileServer.py' adding 'libtbx/server/FileSocket.py' adding 'libtbx/server/SocketServer.py' adding 'libtbx/server/StartServer.py' adding 'libtbx/server/__init__.py' adding 'libtbx/sphinx/__init__.py' adding 'libtbx/sphinx/phil.py' adding 'libtbx/sphinx/pubmed.py' adding 'libtbx/sphinx/python_string.py' adding 'libtbx/test_utils/__init__.py' adding 'libtbx/test_utils/parallel.py' adding 'mmtbx/__init__.py' adding 'mmtbx/arrays.py' adding 'mmtbx/clashes.py' adding 'mmtbx/domains_from_pae.py' adding 'mmtbx/f_model_info.py' adding 'mmtbx/find_peaks.py' adding 'mmtbx/grow_density.py' adding 'mmtbx/invariant_domain.py' adding 'mmtbx/lattice.py' adding 'mmtbx/libtbx_refresh.py' adding 'mmtbx/map_tools.py' adding 'mmtbx/model_vs_data.py' adding 'mmtbx/msa.py' adding 'mmtbx/pdb_distances.py' adding 'mmtbx/pdb_symmetry.py' adding 'mmtbx/pdbtools.py' adding 'mmtbx/process_predicted_model.py' adding 'mmtbx/proq2.py' adding 'mmtbx/real_space_correlation.py' adding 'mmtbx/resolve_resources.py' adding 'mmtbx/restraints.py' adding 'mmtbx/run_tests.py' adding 'mmtbx/superpose.py' adding 'mmtbx/xmanip.py' adding 'mmtbx/xmanip_tasks.py' adding 'mmtbx/alignment/__init__.py' adding 'mmtbx/atomic_environment_vectors/__init__.py' adding 'mmtbx/atomic_environment_vectors/tst.py' adding 'mmtbx/building/__init__.py' adding 'mmtbx/building/cablam_idealization.py' adding 'mmtbx/building/extend_sidechains.py' adding 'mmtbx/building/loop_idealization.py' adding 'mmtbx/building/merge_models.py' adding 'mmtbx/building/minimize_chain.py' adding 'mmtbx/building/tst_extend_sidechains.py' adding 'mmtbx/building/tst_extend_sidechains_2.py' adding 'mmtbx/building/ligands/__init__.py' adding 'mmtbx/building/ligands/lifi.py' adding 'mmtbx/building/ligands/tst_00.py' adding 'mmtbx/building/loop_closure/__init__.py' adding 'mmtbx/building/loop_closure/berkeley_ramalyze.py' adding 'mmtbx/building/loop_closure/ccd.py' adding 'mmtbx/building/loop_closure/starting_conformations.py' adding 'mmtbx/building/loop_closure/utils.py' adding 'mmtbx/bulk_solvent/__init__.py' adding 'mmtbx/bulk_solvent/bulk_solvent_and_scaling.py' adding 'mmtbx/bulk_solvent/example.py' adding 'mmtbx/bulk_solvent/example2.py' adding 'mmtbx/bulk_solvent/f_model_all_scales.py' adding 'mmtbx/bulk_solvent/kbu_refinery.py' adding 'mmtbx/bulk_solvent/mosaic.py' adding 'mmtbx/bulk_solvent/multi_mask_bulk_solvent.py' adding 'mmtbx/bulk_solvent/scaler.py' adding 'mmtbx/bulk_solvent/tst_aniso_scaler.py' adding 'mmtbx/bulk_solvent/tst_bulk_solvent_and_scaling.py' adding 'mmtbx/bulk_solvent/tst_fit_kexpb_to_ktotal.py' adding 'mmtbx/bulk_solvent/tst_flat_nonuniform.py' adding 'mmtbx/bulk_solvent/tst_kb_sol_u_star_fd.py' adding 'mmtbx/bulk_solvent/tst_mosaic.py' adding 'mmtbx/bulk_solvent/tst_scaler.py' adding 'mmtbx/chemical_components/__init__.py' adding 'mmtbx/chemical_components/cif_parser.py' adding 'mmtbx/chemical_components/tst.py' adding 'mmtbx/command_line/__init__.py' adding 'mmtbx/command_line/altloc_remediate.py' adding 'mmtbx/command_line/angle.py' adding 'mmtbx/command_line/apply_ncs_to_ligand.py' adding 'mmtbx/command_line/arginine_geometry.py' adding 'mmtbx/command_line/atom_valence_simple.py' adding 'mmtbx/command_line/barbed_wire_analysis.py' adding 'mmtbx/command_line/cablam.py' adding 'mmtbx/command_line/cablam_idealization.py' adding 'mmtbx/command_line/cbetadev.py' adding 'mmtbx/command_line/cc_star.py' adding 'mmtbx/command_line/chiral_validation.py' adding 'mmtbx/command_line/cif_as_mtz.py' adding 'mmtbx/command_line/clashscore.py' adding 'mmtbx/command_line/clashscore2.py' adding 'mmtbx/command_line/comparama.py' adding 'mmtbx/command_line/debug_riding.py' adding 'mmtbx/command_line/density_modification.py' adding 'mmtbx/command_line/development_aev.py' adding 'mmtbx/command_line/development_fem.py' adding 'mmtbx/command_line/distance_difference.py' adding 'mmtbx/command_line/dynamics.py' adding 'mmtbx/command_line/electrons.py' adding 'mmtbx/command_line/emringer.py' adding 'mmtbx/command_line/emringer_score.py' adding 'mmtbx/command_line/estimate_bijvoet_ratio.py' adding 'mmtbx/command_line/f000.py' adding 'mmtbx/command_line/fab_elbow_angle.py' adding 'mmtbx/command_line/fake_f_obs.py' adding 'mmtbx/command_line/fetch_pdb.py' adding 'mmtbx/command_line/find_peaks_holes.py' adding 'mmtbx/command_line/find_residue_in_pdb.py' adding 'mmtbx/command_line/find_tls_groups.py' adding 'mmtbx/command_line/fmodel.py' adding 'mmtbx/command_line/fobs_minus_fobs_map.py' adding 'mmtbx/command_line/geometry_minimization.py' adding 'mmtbx/command_line/grow_density.py' adding 'mmtbx/command_line/hbond.py' adding 'mmtbx/command_line/helix_sheet_recs_as_pdb_files.py' adding 'mmtbx/command_line/holton_geometry_validation.py' adding 'mmtbx/command_line/hydrogenate.py' adding 'mmtbx/command_line/kinemage.py' adding 'mmtbx/command_line/ligand_restraints_validation.py' adding 'mmtbx/command_line/map_box.py' adding 'mmtbx/command_line/map_comparison.py' adding 'mmtbx/command_line/map_to_model_histogram.py' adding 'mmtbx/command_line/map_to_structure_factors.py' adding 'mmtbx/command_line/maps.py' adding 'mmtbx/command_line/mask.py' adding 'mmtbx/command_line/massage_data.py' adding 'mmtbx/command_line/matthews.py' adding 'mmtbx/command_line/maximum_entropy_map.py' adding 'mmtbx/command_line/model_idealization.py' adding 'mmtbx/command_line/model_map.py' adding 'mmtbx/command_line/model_model_distances.py' adding 'mmtbx/command_line/model_vs_data.py' adding 'mmtbx/command_line/model_vs_map.py' adding 'mmtbx/command_line/model_vs_sequence.py' adding 'mmtbx/command_line/models_as_chains.py' adding 'mmtbx/command_line/molprobity.py' adding 'mmtbx/command_line/mon_lib_cif_triage.py' adding 'mmtbx/command_line/mp_geo.py' adding 'mmtbx/command_line/mp_validate_bonds.py' adding 'mmtbx/command_line/mtz2map.py' adding 'mmtbx/command_line/next_gen_atom_typing.py' adding 'mmtbx/command_line/nonbonded_overlaps.py' adding 'mmtbx/command_line/omegalyze.py' adding 'mmtbx/command_line/pdb_atom_selection.py' adding 'mmtbx/command_line/pdb_interpretation.py' adding 'mmtbx/command_line/pdbtools.py' adding 'mmtbx/command_line/perigee.py' adding 'mmtbx/command_line/plan_sad_experiment.py' adding 'mmtbx/command_line/polder.py' adding 'mmtbx/command_line/prepare_pdb_deposition.py' adding 'mmtbx/command_line/probe2.py' adding 'mmtbx/command_line/probescore_ligand.py' adding 'mmtbx/command_line/process_predicted_model.py' adding 'mmtbx/command_line/prune_model.py' adding 'mmtbx/command_line/quantum_interface.py' adding 'mmtbx/command_line/r_factor_statistics.py' adding 'mmtbx/command_line/rama_z.py' adding 'mmtbx/command_line/ramalyze.py' adding 'mmtbx/command_line/rank_scale_map.py' adding 'mmtbx/command_line/real_space_correlation.py' adding 'mmtbx/command_line/real_space_diff_map.py' adding 'mmtbx/command_line/rebuild_cablam_cache.py' adding 'mmtbx/command_line/rebuild_rotarama_cache.py' adding 'mmtbx/command_line/reciprocal_space_arrays.py' adding 'mmtbx/command_line/reduce2.py' adding 'mmtbx/command_line/reduce_cryoem_resolution.py' adding 'mmtbx/command_line/refine_anomalous_substructure.py' adding 'mmtbx/command_line/remove_outliers.py' adding 'mmtbx/command_line/ribbons.py' adding 'mmtbx/command_line/rigid_bond_test.py' adding 'mmtbx/command_line/ringer.py' adding 'mmtbx/command_line/rna_validate.py' adding 'mmtbx/command_line/rna_validate_bonds.py' adding 'mmtbx/command_line/rna_validate_puckers.py' adding 'mmtbx/command_line/rna_validate_suites.py' adding 'mmtbx/command_line/rotalyze.py' adding 'mmtbx/command_line/search_pdb_symmetry.py' adding 'mmtbx/command_line/secondary_structure_restraints.py' adding 'mmtbx/command_line/secondary_structure_validation.py' adding 'mmtbx/command_line/select_best_starting_model.py' adding 'mmtbx/command_line/show_r_factors_by_shell.py' adding 'mmtbx/command_line/sisa.py' adding 'mmtbx/command_line/sort_hetatms.py' adding 'mmtbx/command_line/ss_idealization.py' adding 'mmtbx/command_line/suitename.py' adding 'mmtbx/command_line/suitename_old.py' adding 'mmtbx/command_line/super.py' adding 'mmtbx/command_line/superpose.py' adding 'mmtbx/command_line/taam_minus_iam.py' adding 'mmtbx/command_line/table_one.py' adding 'mmtbx/command_line/tls.py' adding 'mmtbx/command_line/tls_analysis.py' adding 'mmtbx/command_line/tls_as_xyz.py' adding 'mmtbx/command_line/undowser.py' adding 'mmtbx/command_line/undowser2.py' adding 'mmtbx/command_line/validate_H_cl_app.py' adding 'mmtbx/command_line/validate_ligands.py' adding 'mmtbx/command_line/validation_summary.py' adding 'mmtbx/command_line/verify_mon_lib_data.py' adding 'mmtbx/command_line/water_b_factors.py' adding 'mmtbx/command_line/where_is_that_cif_file.py' adding 'mmtbx/command_line/xmanip.py' adding 'mmtbx/command_line/xtrapol8.py' adding 'mmtbx/command_line/xtriage.py' adding 'mmtbx/conformation_dependent_library/LinkedResidues.py' adding 'mmtbx/conformation_dependent_library/__init__.py' adding 'mmtbx/conformation_dependent_library/altloc_weighting.py' adding 'mmtbx/conformation_dependent_library/bond_angle_registry.py' adding 'mmtbx/conformation_dependent_library/cdl_database.py' adding 'mmtbx/conformation_dependent_library/cdl_setup.py' adding 'mmtbx/conformation_dependent_library/cdl_svl_database.py' adding 'mmtbx/conformation_dependent_library/cdl_utils.py' adding 'mmtbx/conformation_dependent_library/check_cdl_database.py' adding 'mmtbx/conformation_dependent_library/density_dependent_restraints.py' adding 'mmtbx/conformation_dependent_library/enol_peptide_restraints.py' adding 'mmtbx/conformation_dependent_library/histidines.py' adding 'mmtbx/conformation_dependent_library/hpdl_database.py' adding 'mmtbx/conformation_dependent_library/hydrogen_bonding.py' adding 'mmtbx/conformation_dependent_library/investigate_rotamer_space.py' adding 'mmtbx/conformation_dependent_library/mcl.py' adding 'mmtbx/conformation_dependent_library/mcl_sf4_coordination.py' adding 'mmtbx/conformation_dependent_library/metal_coordination_library.py' adding 'mmtbx/conformation_dependent_library/multi_base_class.py' adding 'mmtbx/conformation_dependent_library/multi_residue_cdl_class.py' adding 'mmtbx/conformation_dependent_library/multi_residue_class.py' adding 'mmtbx/conformation_dependent_library/nucleotides.py' adding 'mmtbx/conformation_dependent_library/omega.py' adding 'mmtbx/conformation_dependent_library/omega_database.py' adding 'mmtbx/conformation_dependent_library/pH_dependent_restraints.py' adding 'mmtbx/conformation_dependent_library/rdl_database.py' adding 'mmtbx/conformation_dependent_library/rotamers.py' adding 'mmtbx/conformation_dependent_library/sf4_restraints.py' adding 'mmtbx/conformation_dependent_library/testing_utils.py' adding 'mmtbx/conformation_dependent_library/tst_cdl.py' adding 'mmtbx/conformation_dependent_library/tst_cdl_esd.py' adding 'mmtbx/conformation_dependent_library/tst_cdl_nucleotides.py' adding 'mmtbx/conformation_dependent_library/tst_cis_c_n_ca.py' adding 'mmtbx/conformation_dependent_library/tst_enol_peptide.py' adding 'mmtbx/conformation_dependent_library/tst_hpdl.py' adding 'mmtbx/conformation_dependent_library/tst_mcl_01.py' adding 'mmtbx/conformation_dependent_library/tst_mcl_02.py' adding 'mmtbx/conformation_dependent_library/tst_mcl_03.py' adding 'mmtbx/conformation_dependent_library/tst_multi_residue_rna.py' adding 'mmtbx/conformation_dependent_library/tst_mutli_residue.py' adding 'mmtbx/conformation_dependent_library/tst_omega_cdl.py' adding 'mmtbx/conformation_dependent_library/tst_pH_mechanism.py' adding 'mmtbx/conformation_dependent_library/tst_poly_ca_multi_residue.py' adding 'mmtbx/conformation_dependent_library/tst_rdl.py' adding 'mmtbx/conformation_dependent_library/tst_rna_dna_fragments.py' adding 'mmtbx/conformation_dependent_library/utils.py' adding 'mmtbx/den/__init__.py' adding 'mmtbx/den/plot_weights.py' adding 'mmtbx/den/refinement.py' adding 'mmtbx/density_modification/__init__.py' adding 'mmtbx/density_modification/tst_density_modification.py' adding 'mmtbx/disorder/__init__.py' adding 'mmtbx/disorder/analyze_model.py' adding 'mmtbx/disorder/backbone.py' adding 'mmtbx/disorder/tst.py' adding 'mmtbx/disorder/tst_analyze_model.py' adding 'mmtbx/disorder/tst_backbone.py' adding 'mmtbx/dynamics/__init__.py' adding 'mmtbx/dynamics/cartesian_dynamics.py' adding 'mmtbx/dynamics/constants.py' adding 'mmtbx/dynamics/ensemble_cd.py' adding 'mmtbx/dynamics/simulated_annealing.py' adding 'mmtbx/dynamics/tst_cartesian_dynamics.py' adding 'mmtbx/dynamics/tst_sa.py' adding 'mmtbx/f_model/__init__.py' adding 'mmtbx/f_model/f_model.py' adding 'mmtbx/f_model/f_model_info.py' adding 'mmtbx/geometry/__init__.py' adding 'mmtbx/geometry/altloc.py' adding 'mmtbx/geometry/asa.py' adding 'mmtbx/geometry/clash.py' adding 'mmtbx/geometry/indexing.py' adding 'mmtbx/geometry/shared_types.py' adding 'mmtbx/geometry/sphere_surface_sampling.py' adding 'mmtbx/geometry/topology.py' adding 'mmtbx/geometry_restraints/__init__.py' adding 'mmtbx/geometry_restraints/afitt.py' adding 'mmtbx/geometry_restraints/base_qm_manager.py' adding 'mmtbx/geometry_restraints/c_beta.py' adding 'mmtbx/geometry_restraints/external.py' adding 'mmtbx/geometry_restraints/geo_file_parsing.py' adding 'mmtbx/geometry_restraints/mopac_manager.py' adding 'mmtbx/geometry_restraints/orca_manager.py' adding 'mmtbx/geometry_restraints/qi_utils.py' adding 'mmtbx/geometry_restraints/qm_manager.py' adding 'mmtbx/geometry_restraints/quantum_interface.py' adding 'mmtbx/geometry_restraints/quantum_restraints_manager.py' adding 'mmtbx/geometry_restraints/ramachandran.py' adding 'mmtbx/geometry_restraints/reference.py' adding 'mmtbx/geometry_restraints/tst_c_beta_restraints.py' adding 'mmtbx/geometry_restraints/tst_geo_file_parsing.py' adding 'mmtbx/geometry_restraints/tst_manager.py' adding 'mmtbx/geometry_restraints/tst_ramachandran.py' adding 'mmtbx/geometry_restraints/tst_reference_coordinate.py' adding 'mmtbx/geometry_restraints/tst_reference_coordinate2.py' adding 'mmtbx/geometry_restraints/torsion_restraints/__init__.py' adding 'mmtbx/geometry_restraints/torsion_restraints/reference_model.py' adding 'mmtbx/geometry_restraints/torsion_restraints/rotamer_search.py' adding 'mmtbx/geometry_restraints/torsion_restraints/torsion_ncs.py' adding 'mmtbx/geometry_restraints/torsion_restraints/tst_reference_model.py' adding 'mmtbx/geometry_restraints/torsion_restraints/tst_reference_model_ligands.py' adding 'mmtbx/geometry_restraints/torsion_restraints/tst_torsion_ncs.py' adding 'mmtbx/geometry_restraints/torsion_restraints/utils.py' adding 'mmtbx/hydrogens/__init__.py' adding 'mmtbx/hydrogens/build_hydrogens.py' adding 'mmtbx/hydrogens/connectivity.py' adding 'mmtbx/hydrogens/find.py' adding 'mmtbx/hydrogens/neutron_utils.py' adding 'mmtbx/hydrogens/parameterization.py' adding 'mmtbx/hydrogens/reduce_hydrogen.py' adding 'mmtbx/hydrogens/riding.py' adding 'mmtbx/hydrogens/specialised_hydrogen_atoms.py' adding 'mmtbx/hydrogens/tst.py' adding 'mmtbx/hydrogens/tst_add_hydrogen.py' adding 'mmtbx/hydrogens/tst_add_hydrogen_0.py' adding 'mmtbx/hydrogens/tst_add_hydrogen_1.py' adding 'mmtbx/hydrogens/tst_add_hydrogen_2.py' adding 'mmtbx/hydrogens/tst_add_hydrogen_3.py' adding 'mmtbx/hydrogens/tst_add_hydrogen_4.py' adding 'mmtbx/hydrogens/tst_add_hydrogen_5.py' adding 'mmtbx/hydrogens/tst_add_hydrogen_6.py' adding 'mmtbx/hydrogens/tst_add_hydrogen_7.py' adding 'mmtbx/hydrogens/tst_add_hydrogen_8.py' adding 'mmtbx/hydrogens/tst_add_hydrogen_9.py' adding 'mmtbx/hydrogens/tst_add_hydrogen_time.py' adding 'mmtbx/hydrogens/tst_connectivity.py' adding 'mmtbx/hydrogens/tst_parameterization_1.py' adding 'mmtbx/hydrogens/tst_parameterization_2.py' adding 'mmtbx/hydrogens/tst_parameterization_3.py' adding 'mmtbx/hydrogens/tst_parameterization_4.py' adding 'mmtbx/hydrogens/tst_parameterization_5.py' adding 'mmtbx/hydrogens/tst_parameterization_6.py' adding 'mmtbx/hydrogens/tst_parameterization_7.py' adding 'mmtbx/hydrogens/tst_parameterization_8.py' adding 'mmtbx/hydrogens/tst_parameterization_9.py' adding 'mmtbx/hydrogens/tst_riding_coefficients.py' adding 'mmtbx/hydrogens/tst_riding_fd_1.py' adding 'mmtbx/hydrogens/tst_riding_fd_2.py' adding 'mmtbx/hydrogens/tst_riding_fd_3.py' adding 'mmtbx/hydrogens/tst_riding_fd_4.py' adding 'mmtbx/hydrogens/tst_riding_fd_5.py' adding 'mmtbx/hydrogens/tst_riding_manager.py' adding 'mmtbx/hydrogens/tst_riding_minimize.py' adding 'mmtbx/hydrogens/tst_validate_H.py' adding 'mmtbx/hydrogens/validate_H.py' adding 'mmtbx/ias/__init__.py' adding 'mmtbx/ias/tst_ias.py' adding 'mmtbx/idealized_aa_residues/__init__.py' adding 'mmtbx/idealized_aa_residues/all_his.py' adding 'mmtbx/idealized_aa_residues/rotamer_manager.py' adding 'mmtbx/idealized_aa_residues/sample_rotamers.py' adding 'mmtbx/idealized_aa_residues/tst.py' adding 'mmtbx/ions/__init__.py' adding 'mmtbx/ions/build.py' adding 'mmtbx/ions/environment.py' adding 'mmtbx/ions/geometry.py' adding 'mmtbx/ions/halides.py' adding 'mmtbx/ions/identify.py' adding 'mmtbx/ions/tst_environment.py' adding 'mmtbx/ions/tst_geometries.py' adding 'mmtbx/ions/tst_parameters.py' adding 'mmtbx/ions/tst_pick_approx_zn.py' adding 'mmtbx/ions/tst_pick_ca.py' adding 'mmtbx/ions/tst_pick_ca_svm.py' adding 'mmtbx/ions/tst_pick_k.py' adding 'mmtbx/ions/tst_pick_mg.py' adding 'mmtbx/ions/tst_pickle.py' adding 'mmtbx/ions/tst_symmetry_axis.py' adding 'mmtbx/ions/tst_utils.py' adding 'mmtbx/ions/tst_validate_ca.py' adding 'mmtbx/ions/tst_validate_mg.py' adding 'mmtbx/ions/utils.py' adding 'mmtbx/ions/svm/__init__.py' adding 'mmtbx/ions/svm/dump_sites.py' adding 'mmtbx/ions/svm/tst_classifier_01.py' adding 'mmtbx/ions/svm/tst_classifier_02.py' adding 'mmtbx/ions/svm/utils.py' adding 'mmtbx/kinemage/__init__.py' adding 'mmtbx/kinemage/nrubs.py' adding 'mmtbx/kinemage/ribbons.py' adding 'mmtbx/kinemage/validation.py' adding 'mmtbx/ligands/__init__.py' adding 'mmtbx/ligands/chemistry.py' adding 'mmtbx/ligands/elbow_utils.py' adding 'mmtbx/ligands/electrons.py' adding 'mmtbx/ligands/hierarchy_utils.py' adding 'mmtbx/ligands/rdkit_utils.py' adding 'mmtbx/ligands/ready_set_basics.py' adding 'mmtbx/ligands/ready_set_utils.py' adding 'mmtbx/ligands/tst_electron_scripting.py' adding 'mmtbx/ligands/tst_ready_set_utils.py' adding 'mmtbx/ligands/tst_xtal_screens.py' adding 'mmtbx/ligands/xtal_screens.py' adding 'mmtbx/maps/__init__.py' adding 'mmtbx/maps/composite_omit_map.py' adding 'mmtbx/maps/correlation.py' adding 'mmtbx/maps/fem.py' adding 'mmtbx/maps/fobs_minus_fobs_map.py' adding 'mmtbx/maps/kick.py' adding 'mmtbx/maps/map_model_cc.py' adding 'mmtbx/maps/mtriage.py' adding 'mmtbx/maps/polder.py' adding 'mmtbx/maps/superpose.py' adding 'mmtbx/maps/tst_composite_omit_map.py' adding 'mmtbx/maps/tst_composite_omit_map_2.py' adding 'mmtbx/maps/tst_composite_omit_map_3.py' adding 'mmtbx/maps/tst_correlation.py' adding 'mmtbx/maps/tst_map_model_cc_and_vals_per_atom_xtal.py' adding 'mmtbx/maps/utils.py' adding 'mmtbx/maps/xtrapol8.py' adding 'mmtbx/masks/__init__.py' adding 'mmtbx/masks/tst_asu_mask.py' adding 'mmtbx/masks/tst_masks.py' adding 'mmtbx/max_lik/__init__.py' adding 'mmtbx/max_lik/max_like_non_uniform.py' adding 'mmtbx/max_lik/maxlik.py' adding 'mmtbx/max_lik/tst_max_lik.py' adding 'mmtbx/max_lik/tst_maxlik.py' adding 'mmtbx/model/__init__.py' adding 'mmtbx/model/model.py' adding 'mmtbx/model/restraints.py' adding 'mmtbx/model/statistics.py' adding 'mmtbx/model/utils.py' adding 'mmtbx/monomer_library/__init__.py' adding 'mmtbx/monomer_library/bondlength_defaults.py' adding 'mmtbx/monomer_library/cif_triage.py' adding 'mmtbx/monomer_library/cif_types.py' adding 'mmtbx/monomer_library/conformation_dependent_restraints.py' adding 'mmtbx/monomer_library/conv_v2_v3.py' adding 'mmtbx/monomer_library/correct_hydrogen_geometries.py' adding 'mmtbx/monomer_library/geostd_utils.py' adding 'mmtbx/monomer_library/glyco_chiral_values.py' adding 'mmtbx/monomer_library/glyco_utils.py' adding 'mmtbx/monomer_library/hydrogen_restrictions.py' adding 'mmtbx/monomer_library/idealized_aa.py' adding 'mmtbx/monomer_library/linking_mixins.py' adding 'mmtbx/monomer_library/linking_setup.py' adding 'mmtbx/monomer_library/linking_utils.py' adding 'mmtbx/monomer_library/mmtbx_utils.py' adding 'mmtbx/monomer_library/pdb_interpretation.py' adding 'mmtbx/monomer_library/populate_auto_linking_origin_ids.py' adding 'mmtbx/monomer_library/rna_sugar_pucker_analysis.py' adding 'mmtbx/monomer_library/rotamer_utils.py' adding 'mmtbx/monomer_library/server.py' adding 'mmtbx/monomer_library/tst_all_cif_files.py' adding 'mmtbx/monomer_library/tst_carbo_linking.py' adding 'mmtbx/monomer_library/tst_chg.py' adding 'mmtbx/monomer_library/tst_cif_triage.py' adding 'mmtbx/monomer_library/tst_cif_types.py' adding 'mmtbx/monomer_library/tst_correct_hydrogens.py' adding 'mmtbx/monomer_library/tst_deuterium_terminii.py' adding 'mmtbx/monomer_library/tst_geo_reduce_for_tardy.py' adding 'mmtbx/monomer_library/tst_glyco_coordination.py' adding 'mmtbx/monomer_library/tst_glyco_hand.py' adding 'mmtbx/monomer_library/tst_idealized_aa.py' adding 'mmtbx/monomer_library/tst_iron_sulfur_clusters.py' adding 'mmtbx/monomer_library/tst_linking.py' adding 'mmtbx/monomer_library/tst_metal_coordination.py' adding 'mmtbx/monomer_library/tst_motif.py' adding 'mmtbx/monomer_library/tst_neutron_distance.py' adding 'mmtbx/monomer_library/tst_paral_geo.py' adding 'mmtbx/monomer_library/tst_pdb_interpretation.py' adding 'mmtbx/monomer_library/tst_pdb_interpretation_2.py' adding 'mmtbx/monomer_library/tst_pdb_interpretation_3.py' adding 'mmtbx/monomer_library/tst_pdb_interpretation_4.py' adding 'mmtbx/monomer_library/tst_pdb_interpretation_5.py' adding 'mmtbx/monomer_library/tst_pdb_interpretation_ncs_processing.py' adding 'mmtbx/monomer_library/tst_protein_interpretation.py' adding 'mmtbx/monomer_library/tst_rna_dna_interpretation.py' adding 'mmtbx/monomer_library/tst_rna_sugar_pucker_analysis.py' adding 'mmtbx/monomer_library/tst_rotamer_utils.py' adding 'mmtbx/monomer_library/tst_selection.py' adding 'mmtbx/monomer_library/tst_server.py' adding 'mmtbx/monomer_library/tst_superpose_ideal.py' adding 'mmtbx/monomer_library/tst_tyr_from_gly_and_bnz.py' adding 'mmtbx/monomer_library/tst_user_supplied_library.py' adding 'mmtbx/nci/__init__.py' adding 'mmtbx/nci/data_filtering.py' adding 'mmtbx/nci/hbond.py' adding 'mmtbx/nci/skew_kurt_plot.py' adding 'mmtbx/nci/tst_hbond.py' adding 'mmtbx/ncs/__init__.py' adding 'mmtbx/ncs/cartesian_restraints.py' adding 'mmtbx/ncs/ligands.py' adding 'mmtbx/ncs/ncs.py' adding 'mmtbx/ncs/ncs_params.py' adding 'mmtbx/ncs/ncs_restraints_group_list.py' adding 'mmtbx/ncs/ncs_search.py' adding 'mmtbx/ncs/ncs_utils.py' adding 'mmtbx/ncs/tncs.py' adding 'mmtbx/pair_interaction/__init__.py' adding 'mmtbx/pair_interaction/pair_interaction.py' adding 'mmtbx/pair_interaction/tst_00.py' adding 'mmtbx/pair_interaction/tst_01.py' adding 'mmtbx/pair_interaction/tst_02.py' adding 'mmtbx/pair_interaction/tst_03.py' adding 'mmtbx/pair_interaction/tst_04.py' adding 'mmtbx/pair_interaction/tst_05.py' adding 'mmtbx/polygon/__init__.py' adding 'mmtbx/polygon/output.py' adding 'mmtbx/polygon/tst.py' adding 'mmtbx/polygon/tst_gui.py' adding 'mmtbx/polygon/tst_polygon_data.py' adding 'mmtbx/probe/AtomTypes.py' adding 'mmtbx/probe/CompareOriginalAndNewProbeAtomInfo.py' adding 'mmtbx/probe/Helpers.py' adding 'mmtbx/probe/__init__.py' adding 'mmtbx/probe/tst_mmtbx_probe_ext.py' adding 'mmtbx/programs/__init__.py' adding 'mmtbx/programs/arginine_geometry.py' adding 'mmtbx/programs/atom_selection.py' adding 'mmtbx/programs/atom_valence_simple.py' adding 'mmtbx/programs/barbed_wire_analysis.py' adding 'mmtbx/programs/cablam.py' adding 'mmtbx/programs/cablam_idealization.py' adding 'mmtbx/programs/cbetadev.py' adding 'mmtbx/programs/chiral_validation.py' adding 'mmtbx/programs/clashscore.py' adding 'mmtbx/programs/clashscore2.py' adding 'mmtbx/programs/comparama.py' adding 'mmtbx/programs/debug_riding.py' adding 'mmtbx/programs/elbow_services.py' adding 'mmtbx/programs/emringer.py' adding 'mmtbx/programs/fetch.py' adding 'mmtbx/programs/fmodel.py' adding 'mmtbx/programs/hbond.py' adding 'mmtbx/programs/holton_geometry_validation.py' adding 'mmtbx/programs/hydrogenate.py' adding 'mmtbx/programs/ligand_restraints_validation.py' adding 'mmtbx/programs/mask.py' adding 'mmtbx/programs/matthews.py' adding 'mmtbx/programs/model_vs_sequence.py' adding 'mmtbx/programs/mp_validate_bonds.py' adding 'mmtbx/programs/next_gen_atom_typing.py' adding 'mmtbx/programs/nonbonded_overlaps.py' adding 'mmtbx/programs/omegalyze.py' adding 'mmtbx/programs/pdb_as_cif.py' adding 'mmtbx/programs/pdbtools.py' adding 'mmtbx/programs/polder.py' adding 'mmtbx/programs/prepare_pdb_deposition.py' adding 'mmtbx/programs/probe2.py' adding 'mmtbx/programs/probescore_ligand.py' adding 'mmtbx/programs/process_predicted_model.py' adding 'mmtbx/programs/quantum_interface.py' adding 'mmtbx/programs/rama_z.py' adding 'mmtbx/programs/ramalyze.py' adding 'mmtbx/programs/real_space_correlation.py' adding 'mmtbx/programs/reduce2.py' adding 'mmtbx/programs/reduce_cryoem_resolution.py' adding 'mmtbx/programs/ribbons.py' adding 'mmtbx/programs/rna_validate.py' adding 'mmtbx/programs/rna_validate_bonds.py' adding 'mmtbx/programs/rna_validate_puckers.py' adding 'mmtbx/programs/rna_validate_suites.py' adding 'mmtbx/programs/rotalyze.py' adding 'mmtbx/programs/ss_idealization.py' adding 'mmtbx/programs/ss_validation.py' adding 'mmtbx/programs/suitename.py' adding 'mmtbx/programs/suitename_old.py' adding 'mmtbx/programs/taam_minus_iam.py' adding 'mmtbx/programs/undowser.py' adding 'mmtbx/programs/undowser2.py' adding 'mmtbx/programs/validate_ligands.py' adding 'mmtbx/programs/water_b_factors.py' adding 'mmtbx/programs/xtrapol8.py' adding 'mmtbx/real_space/__init__.py' adding 'mmtbx/real_space/tst.py' adding 'mmtbx/reduce/InteractionGraph.py' adding 'mmtbx/reduce/Movers.py' adding 'mmtbx/reduce/Optimizers.py' adding 'mmtbx/reduce/__init__.py' adding 'mmtbx/reduce/tst_mmtbx_reduce_ext.py' adding 'mmtbx/refinement/__init__.py' adding 'mmtbx/refinement/adp_refinement.py' adding 'mmtbx/refinement/anomalous_scatterer_groups.py' adding 'mmtbx/refinement/calculators.py' adding 'mmtbx/refinement/data.py' adding 'mmtbx/refinement/energy_monitor.py' adding 'mmtbx/refinement/flip_peptide_side_chain.py' adding 'mmtbx/refinement/geometry_minimization.py' adding 'mmtbx/refinement/group.py' adding 'mmtbx/refinement/inspect_tardy_trajectory.py' adding 'mmtbx/refinement/minimization.py' adding 'mmtbx/refinement/minimization_monitor.py' adding 'mmtbx/refinement/minimization_ncs_constraints.py' adding 'mmtbx/refinement/occupancies.py' adding 'mmtbx/refinement/orca.py' adding 'mmtbx/refinement/print_statistics.py' adding 'mmtbx/refinement/refinement_flags.py' adding 'mmtbx/refinement/restraints.py' adding 'mmtbx/refinement/rigid_body.py' adding 'mmtbx/refinement/select_best_starting_model.py' adding 'mmtbx/refinement/tardy.py' adding 'mmtbx/refinement/targets.py' adding 'mmtbx/refinement/tst_anomalous_scatterer_groups.py' adding 'mmtbx/refinement/tst_fit_rotamers.py' adding 'mmtbx/refinement/tst_group.py' adding 'mmtbx/refinement/tst_group_2.py' adding 'mmtbx/refinement/tst_misc.py' adding 'mmtbx/refinement/tst_occupancy_selections.py' adding 'mmtbx/refinement/tst_real_space_simple.py' adding 'mmtbx/refinement/tst_refinement_flags.py' adding 'mmtbx/refinement/tst_rigid_body.py' adding 'mmtbx/refinement/tst_rigid_body_groups_from_pdb_chains.py' adding 'mmtbx/refinement/tst_select_best_starting_model.py' adding 'mmtbx/refinement/utils.py' adding 'mmtbx/refinement/weights.py' adding 'mmtbx/refinement/weights_params.py' adding 'mmtbx/refinement/wrappers.py' adding 'mmtbx/refinement/wx_tardy_pdb.py' adding 'mmtbx/refinement/ensemble_refinement/__init__.py' adding 'mmtbx/refinement/ensemble_refinement/ensemble_probability.py' adding 'mmtbx/refinement/ensemble_refinement/ensemble_utils.py' adding 'mmtbx/refinement/real_space/__init__.py' adding 'mmtbx/refinement/real_space/adp.py' adding 'mmtbx/refinement/real_space/explode_and_refine.py' adding 'mmtbx/refinement/real_space/fit_his.py' adding 'mmtbx/refinement/real_space/fit_residue.py' adding 'mmtbx/refinement/real_space/fit_residues.py' adding 'mmtbx/refinement/real_space/fit_small_molecule.py' adding 'mmtbx/refinement/real_space/fit_water.py' adding 'mmtbx/refinement/real_space/individual_sites.py' adding 'mmtbx/refinement/real_space/occupancy.py' adding 'mmtbx/refinement/real_space/rigid_body.py' adding 'mmtbx/refinement/real_space/tst_aa_residue_axes_and_clusters.py' adding 'mmtbx/refinement/real_space/tst_fit_residue_0.py' adding 'mmtbx/refinement/real_space/tst_fit_residue_0H.py' adding 'mmtbx/refinement/real_space/tst_fit_residue_1.py' adding 'mmtbx/refinement/real_space/tst_fit_residue_1H.py' adding 'mmtbx/refinement/real_space/tst_fit_residue_2.py' adding 'mmtbx/refinement/real_space/tst_fit_residue_3.py' adding 'mmtbx/refinement/real_space/tst_fit_residue_4.py' adding 'mmtbx/refinement/real_space/tst_fit_residue_5.py' adding 'mmtbx/refinement/real_space/tst_fit_residue_6.py' adding 'mmtbx/refinement/real_space/tst_fit_residue_7.py' adding 'mmtbx/refinement/real_space/tst_fit_residue_full_sampling.py' adding 'mmtbx/refinement/real_space/tst_fit_residues_1.py' adding 'mmtbx/refinement/real_space/tst_fit_residues_1H.py' adding 'mmtbx/refinement/real_space/tst_fit_residues_2.py' adding 'mmtbx/refinement/real_space/tst_fit_residues_3.py' adding 'mmtbx/refinement/real_space/tst_fit_residues_4.py' adding 'mmtbx/refinement/real_space/tst_fit_residues_5.py' adding 'mmtbx/refinement/real_space/tst_fit_residues_6.py' adding 'mmtbx/refinement/real_space/tst_fit_residues_selection.py' adding 'mmtbx/refinement/real_space/tst_fit_water.py' adding 'mmtbx/refinement/real_space/tst_individual_sites_1.py' adding 'mmtbx/refinement/real_space/tst_individual_sites_2.py' adding 'mmtbx/refinement/real_space/tst_individual_sites_3.py' adding 'mmtbx/refinement/real_space/tst_monitor.py' adding 'mmtbx/refinement/real_space/tst_rigid_body.py' adding 'mmtbx/refinement/real_space/tst_weight.py' adding 'mmtbx/refinement/real_space/utils.py' adding 'mmtbx/refinement/real_space/weight.py' adding 'mmtbx/regression/__init__.py' adding 'mmtbx/regression/make_fake_anomalous_data.py' adding 'mmtbx/regression/tst_add_arrows_on_plot.py' adding 'mmtbx/regression/tst_add_h_to_water.py' adding 'mmtbx/regression/tst_adp_restraints.py' adding 'mmtbx/regression/tst_alignment.py' adding 'mmtbx/regression/tst_altloc_chain_break.py' adding 'mmtbx/regression/tst_altloc_remediate.py' adding 'mmtbx/regression/tst_angle.py' adding 'mmtbx/regression/tst_anomalous_substructure.py' adding 'mmtbx/regression/tst_apply_cif_restraints.py' adding 'mmtbx/regression/tst_arginine_geometry.py' adding 'mmtbx/regression/tst_cc_star.py' adding 'mmtbx/regression/tst_chain_comparison.py' adding 'mmtbx/regression/tst_chain_comparison_cif.py' adding 'mmtbx/regression/tst_cif_as_mtz_wavelengths.py' adding 'mmtbx/regression/tst_cis_trans_peptide_link.py' adding 'mmtbx/regression/tst_clashes.py' adding 'mmtbx/regression/tst_command_line_input.py' adding 'mmtbx/regression/tst_domains_from_pae.py' adding 'mmtbx/regression/tst_domains_from_pae_cif.py' adding 'mmtbx/regression/tst_dynamics_cli.py' adding 'mmtbx/regression/tst_examples.py' adding 'mmtbx/regression/tst_find_ncs.py' adding 'mmtbx/regression/tst_find_ss_structure.py' adding 'mmtbx/regression/tst_find_ss_structure_cif.py' adding 'mmtbx/regression/tst_flipping_his.py' adding 'mmtbx/regression/tst_fmodel.py' adding 'mmtbx/regression/tst_fmodel_2.py' adding 'mmtbx/regression/tst_fmodel_and_dm.py' adding 'mmtbx/regression/tst_fmodel_fd.py' adding 'mmtbx/regression/tst_fmodel_misc.py' adding 'mmtbx/regression/tst_fmodel_no_cryst1.py' adding 'mmtbx/regression/tst_geo_min_restraints_phil.py' adding 'mmtbx/regression/tst_geometry_minimization.py' adding 'mmtbx/regression/tst_helix_sheet_recs_as_pdb_files.py' adding 'mmtbx/regression/tst_holton_geometry_validation.py' adding 'mmtbx/regression/tst_isomorphous_difference_misc.py' adding 'mmtbx/regression/tst_ligand_ncs.py' adding 'mmtbx/regression/tst_loop_closure.py' adding 'mmtbx/regression/tst_lrv.py' adding 'mmtbx/regression/tst_map_model_cc.py' adding 'mmtbx/regression/tst_map_type_parser.py' adding 'mmtbx/regression/tst_maps_misc.py' adding 'mmtbx/regression/tst_metal_link_1.py' adding 'mmtbx/regression/tst_minimize_chain.py' adding 'mmtbx/regression/tst_ml_estimate.py' adding 'mmtbx/regression/tst_mmtbx_refinement_wrappers.py' adding 'mmtbx/regression/tst_mmtbx_refinement_wrappers_1.py' adding 'mmtbx/regression/tst_mmtbx_refinement_wrappers_2.py' adding 'mmtbx/regression/tst_model_map.py' adding 'mmtbx/regression/tst_model_vs_map.py' adding 'mmtbx/regression/tst_model_vs_sequence.py' adding 'mmtbx/regression/tst_models_to_from_chains.py' adding 'mmtbx/regression/tst_msa.py' adding 'mmtbx/regression/tst_mtz2map.py' adding 'mmtbx/regression/tst_multi_residue_class.py' adding 'mmtbx/regression/tst_origin_ids.py' adding 'mmtbx/regression/tst_pdbtools.py' adding 'mmtbx/regression/tst_polder.py' adding 'mmtbx/regression/tst_polder_1.py' adding 'mmtbx/regression/tst_polder_2.py' adding 'mmtbx/regression/tst_polder_3.py' adding 'mmtbx/regression/tst_polder_4.py' adding 'mmtbx/regression/tst_polder_box.py' adding 'mmtbx/regression/tst_polder_ccs.py' adding 'mmtbx/regression/tst_probe.py' adding 'mmtbx/regression/tst_process_predicted_model.py' adding 'mmtbx/regression/tst_process_predicted_model_cif.py' adding 'mmtbx/regression/tst_prune_model.py' adding 'mmtbx/regression/tst_psi_phi_extraction.py' adding 'mmtbx/regression/tst_rank_scale_map.py' adding 'mmtbx/regression/tst_rdkit_utils_fragmentation.py' adding 'mmtbx/regression/tst_real_space_correlation.py' adding 'mmtbx/regression/tst_reduce.py' adding 'mmtbx/regression/tst_reduce_cryoem_resolution.py' adding 'mmtbx/regression/tst_reduce_timeout.py' adding 'mmtbx/regression/tst_refine_anomalous_substructure.py' adding 'mmtbx/regression/tst_regularize_from_pdb.py' adding 'mmtbx/regression/tst_regularize_from_pdb_cif.py' adding 'mmtbx/regression/tst_ribbons.py' adding 'mmtbx/regression/tst_rigid_bond_test.py' adding 'mmtbx/regression/tst_ringer.py' adding 'mmtbx/regression/tst_sampled_model_density.py' adding 'mmtbx/regression/tst_scattering_table.py' adding 'mmtbx/regression/tst_scattering_type_registry.py' adding 'mmtbx/regression/tst_schrodinger_interface.py' adding 'mmtbx/regression/tst_sequence_validation.py' adding 'mmtbx/regression/tst_sort_hetatms.py' adding 'mmtbx/regression/tst_special_term_at_end.py' adding 'mmtbx/regression/tst_statistics_output.py' adding 'mmtbx/regression/tst_superpose.py' adding 'mmtbx/regression/tst_table_one.py' adding 'mmtbx/regression/tst_utils.py' adding 'mmtbx/regression/tst_validate_ligands.py' adding 'mmtbx/regression/tst_validate_ligands_2.py' adding 'mmtbx/regression/tst_validation_summary.py' adding 'mmtbx/regression/model/__init__.py' adding 'mmtbx/regression/model/tst_model.py' adding 'mmtbx/regression/model/tst_model_2.py' adding 'mmtbx/regression/model/tst_model_biomt_mtrix.py' adding 'mmtbx/regression/model/tst_model_biomt_mtrix_2.py' adding 'mmtbx/regression/model/tst_model_cart_ref_restraints.py' adding 'mmtbx/regression/model/tst_model_dedeuterate.py' adding 'mmtbx/regression/model/tst_model_get_vdw_radii.py' adding 'mmtbx/regression/model/tst_model_merge.py' adding 'mmtbx/regression/model/tst_model_mtrix.py' adding 'mmtbx/regression/model/tst_model_ncs.py' adding 'mmtbx/regression/model/tst_model_neutralize_scatterers.py' adding 'mmtbx/regression/model/tst_model_pairs_within.py' adding 'mmtbx/regression/model/tst_model_ramachandran.py' adding 'mmtbx/regression/model/tst_model_remove_alternative_conformations.py' adding 'mmtbx/regression/model/tst_model_set_hydrogen_bond_length.py' adding 'mmtbx/regression/model/tst_model_symmetry.py' adding 'mmtbx/regression/model/tst_model_tors_ref_restraints.py' adding 'mmtbx/regression/model/tst_model_utils_merge_models.py' adding 'mmtbx/regression/model/tst_restrain_selection_to_self_or_neighbors.py' adding 'mmtbx/regression/ncs/__init__.py' adding 'mmtbx/regression/ncs/tst_geometry_minimization_ncs_constraints.py' adding 'mmtbx/regression/ncs/tst_minimization_ncs_constraints.py' adding 'mmtbx/regression/ncs/tst_minimization_ncs_constraints2.py' adding 'mmtbx/regression/ncs/tst_minimization_ncs_constraints3.py' adding 'mmtbx/regression/ncs/tst_minimization_ncs_constraints_real_space.py' adding 'mmtbx/regression/ncs/tst_ncs_restraints_group_list.py' adding 'mmtbx/regression/ncs/tst_ncs_search.py' adding 'mmtbx/regression/ncs/tst_ncs_search_flips.py' adding 'mmtbx/regression/ncs/tst_ncs_utils.py' adding 'mmtbx/regression/ncs/tst_restraints.py' adding 'mmtbx/regression/tls/__init__.py' adding 'mmtbx/regression/tls/tst_formula_t_S_10_vs_11_2igd.py' adding 'mmtbx/regression/tls/tst_formula_t_S_10_vs_11_4muy.py' adding 'mmtbx/regression/tls/tst_get_t_scheme.py' adding 'mmtbx/regression/tls/tst_tls.py' adding 'mmtbx/regression/tls/tst_tls_analysis.py' adding 'mmtbx/regression/tls/tst_tls_as_xyz.py' adding 'mmtbx/regression/tls/tst_tls_optimise_amplitudes.py' adding 'mmtbx/regression/tls/tst_tls_refinement_fft.py' adding 'mmtbx/regression/tls/tst_tls_utils.py' adding 'mmtbx/regression/tls/tst_u_tls_vs_u_ens_00.py' adding 'mmtbx/regression/tls/tst_u_tls_vs_u_ens_01.py' adding 'mmtbx/regression/tls/tst_u_tls_vs_u_ens_02.py' adding 'mmtbx/regression/tls/tst_u_tls_vs_u_ens_03.py' adding 'mmtbx/regression/tls/tst_u_tls_vs_u_ens_04.py' adding 'mmtbx/ringer/__init__.py' adding 'mmtbx/ringer/em_rolling.py' adding 'mmtbx/ringer/em_rscc.py' adding 'mmtbx/ringer/em_scoring.py' adding 'mmtbx/ringer/emringer.py' adding 'mmtbx/ringer/tst_em_rscc.py' adding 'mmtbx/ringer/tst_emringer.py' adding 'mmtbx/rotamer/__init__.py' adding 'mmtbx/rotamer/graphics.py' adding 'mmtbx/rotamer/n_dim_table.py' adding 'mmtbx/rotamer/nqh.py' adding 'mmtbx/rotamer/ramachandran_eval.py' adding 'mmtbx/rotamer/ramachandran_eval_deprecated.py' adding 'mmtbx/rotamer/rotamer_eval.py' adding 'mmtbx/rotamer/sidechain_angles.py' adding 'mmtbx/rotamer/tst_geostd_vs_sidechain_angles_props.py' adding 'mmtbx/rotamer/tst_rotamer_eval.py' adding 'mmtbx/rsr/__init__.py' adding 'mmtbx/rsr/tst.py' adding 'mmtbx/scaling/__init__.py' adding 'mmtbx/scaling/absence_likelihood.py' adding 'mmtbx/scaling/absences.py' adding 'mmtbx/scaling/absolute_scaling.py' adding 'mmtbx/scaling/basic_analyses.py' adding 'mmtbx/scaling/bayesian_estimator.py' adding 'mmtbx/scaling/data_statistics.py' adding 'mmtbx/scaling/fa_estimation.py' adding 'mmtbx/scaling/make_param.py' adding 'mmtbx/scaling/massage_twin_detwin_data.py' adding 'mmtbx/scaling/matthews.py' adding 'mmtbx/scaling/mean_f_rms_f.py' adding 'mmtbx/scaling/outlier_plots.py' adding 'mmtbx/scaling/outlier_rejection.py' adding 'mmtbx/scaling/pair_analyses.py' adding 'mmtbx/scaling/plan_sad_experiment.py' adding 'mmtbx/scaling/pre_scale.py' adding 'mmtbx/scaling/random_omit.py' adding 'mmtbx/scaling/relative_scaling.py' adding 'mmtbx/scaling/relative_wilson.py' adding 'mmtbx/scaling/remove_outliers.py' adding 'mmtbx/scaling/sigmaa_estimation.py' adding 'mmtbx/scaling/ta_alpha_beta_calc.py' adding 'mmtbx/scaling/thorough_outlier_test.py' adding 'mmtbx/scaling/tst_absences.py' adding 'mmtbx/scaling/tst_bayesian_estimator.py' adding 'mmtbx/scaling/tst_massage_data.py' adding 'mmtbx/scaling/tst_mean_f_rms_f.py' adding 'mmtbx/scaling/tst_outlier.py' adding 'mmtbx/scaling/tst_plan_sad_experiment.py' adding 'mmtbx/scaling/tst_scaling.py' adding 'mmtbx/scaling/tst_sigmaa.py' adding 'mmtbx/scaling/tst_xtriage.py' adding 'mmtbx/scaling/tst_xtriage_twin_analyses.py' adding 'mmtbx/scaling/twin_analyses.py' adding 'mmtbx/scaling/twmad_scale.py' adding 'mmtbx/scaling/xtriage.py' adding 'mmtbx/secondary_structure/__init__.py' adding 'mmtbx/secondary_structure/find_ss_from_ca.py' adding 'mmtbx/secondary_structure/nucleic_acids.py' adding 'mmtbx/secondary_structure/proteins.py' adding 'mmtbx/secondary_structure/regularize_from_pdb.py' adding 'mmtbx/secondary_structure/secondary_structure_params.py' adding 'mmtbx/secondary_structure/ss_validation.py' adding 'mmtbx/secondary_structure/tst.py' adding 'mmtbx/secondary_structure/tst_insertion_codes.py' adding 'mmtbx/secondary_structure/tst_segid.py' adding 'mmtbx/secondary_structure/utils.py' adding 'mmtbx/secondary_structure/build/__init__.py' adding 'mmtbx/secondary_structure/build/ss_idealization.py' adding 'mmtbx/secondary_structure/build/tst_1.py' adding 'mmtbx/secondary_structure/build/tst_2.py' adding 'mmtbx/secondary_structure/build/tst_3.py' adding 'mmtbx/secondary_structure/build/tst_io.py' adding 'mmtbx/secondary_structure/build/tst_ss_id_ncs.py' adding 'mmtbx/sisa/__init__.py' adding 'mmtbx/sisa/optimize/__init__.py' adding 'mmtbx/sisa/optimize/mod_ga.py' adding 'mmtbx/sisa/optimize/mod_input.py' adding 'mmtbx/sisa/optimize/mod_masks.py' adding 'mmtbx/sisa/optimize/mod_mtz.py' adding 'mmtbx/sisa/optimize/mod_optimize.py' adding 'mmtbx/sisa/optimize/mod_util.py' adding 'mmtbx/solvent/__init__.py' adding 'mmtbx/solvent/ensemble_ordered_solvent.py' adding 'mmtbx/solvent/map_to_water.py' adding 'mmtbx/solvent/ordered_solvent.py' adding 'mmtbx/suitename/__init__.py' adding 'mmtbx/suitename/diangle.py' adding 'mmtbx/suitename/dualparse.py' adding 'mmtbx/suitename/mainchain.py' adding 'mmtbx/suitename/suitealyze.py' adding 'mmtbx/suitename/suitename.py' adding 'mmtbx/suitename/suitenamedefs.py' adding 'mmtbx/suitename/suiteninit.py' adding 'mmtbx/suitename/suiteninput.py' adding 'mmtbx/suitename/suitenout.py' adding 'mmtbx/suitename/suites.py' adding 'mmtbx/suitename/transdent.py' adding 'mmtbx/tls/__init__.py' adding 'mmtbx/tls/analysis.py' adding 'mmtbx/tls/command_line.py' adding 'mmtbx/tls/decompose.py' adding 'mmtbx/tls/ladp.py' adding 'mmtbx/tls/optimise_amplitudes.py' adding 'mmtbx/tls/perm10.py' adding 'mmtbx/tls/perm11.py' adding 'mmtbx/tls/perm12.py' adding 'mmtbx/tls/perm13.py' adding 'mmtbx/tls/perm14.py' adding 'mmtbx/tls/perm15.py' adding 'mmtbx/tls/tls_as_xyz.py' adding 'mmtbx/tls/tools.py' adding 'mmtbx/tls/utils.py' adding 'mmtbx/twinning/__init__.py' adding 'mmtbx/twinning/probabalistic_detwinning.py' adding 'mmtbx/twinning/twin_f_model.py' adding 'mmtbx/utils/__init__.py' adding 'mmtbx/utils/fab_elbow_angle.py' adding 'mmtbx/utils/grid2d.py' adding 'mmtbx/utils/ntc.py' adding 'mmtbx/utils/rotatable_bonds.py' adding 'mmtbx/utils/tst_switch_rotamers.py' adding 'mmtbx/validation/__init__.py' adding 'mmtbx/validation/analyze_peptides.py' adding 'mmtbx/validation/barbed_wire_analysis.py' adding 'mmtbx/validation/cablam.py' adding 'mmtbx/validation/cbd_utils.py' adding 'mmtbx/validation/cbetadev.py' adding 'mmtbx/validation/chain_comparison.py' adding 'mmtbx/validation/clashscore.py' adding 'mmtbx/validation/clashscore2.py' adding 'mmtbx/validation/comparama.py' adding 'mmtbx/validation/comprehensive_residue.py' adding 'mmtbx/validation/convert_lists.py' adding 'mmtbx/validation/datasets.py' adding 'mmtbx/validation/ensembles.py' adding 'mmtbx/validation/experimental.py' adding 'mmtbx/validation/fav_lists.py' adding 'mmtbx/validation/graphics.py' adding 'mmtbx/validation/holton_geometry_validation.py' adding 'mmtbx/validation/ligands.py' adding 'mmtbx/validation/mean_devs_PRO_phi_psi.py' adding 'mmtbx/validation/mean_devs_VAL_THR_ILE_phi_psi.py' adding 'mmtbx/validation/mean_devs_others_phi_psi.py' adding 'mmtbx/validation/model_properties.py' adding 'mmtbx/validation/mp_validate_bonds.py' adding 'mmtbx/validation/omegalyze.py' adding 'mmtbx/validation/phi_psi_2_data.py' adding 'mmtbx/validation/rama_z.py' adding 'mmtbx/validation/ramalyze.py' adding 'mmtbx/validation/restraints.py' adding 'mmtbx/validation/rna_validate.py' adding 'mmtbx/validation/rotalyze.py' adding 'mmtbx/validation/sequence.py' adding 'mmtbx/validation/undowser.py' adding 'mmtbx/validation/undowser2.py' adding 'mmtbx/validation/utils.py' adding 'mmtbx/validation/validate_ligands.py' adding 'mmtbx/validation/waters.py' adding 'mmtbx/validation/molprobity/__init__.py' adding 'mmtbx/validation/molprobity/kinemage_templates.py' adding 'mmtbx/validation/molprobity/mp_geo.py' adding 'mmtbx/validation/molprobity/percentile_clashscore.py' adding 'mmtbx/validation/molprobity/percentile_mpscore.py' adding 'mmtbx/validation/molprobity/probescore_ligand.py' adding 'mmtbx/validation/molprobity/table_from_json.py' adding 'mmtbx/validation/ramachandran/__init__.py' adding 'mmtbx/validation/ramachandran/convert_from_text.py' adding 'mmtbx/validation/regression/__init__.py' adding 'mmtbx/validation/regression/run_restraints.py' adding 'mmtbx/validation/regression/tst_cablam.py' adding 'mmtbx/validation/regression/tst_cablam_2.py' adding 'mmtbx/validation/regression/tst_cbetadev.py' adding 'mmtbx/validation/regression/tst_cbetadev_02.py' adding 'mmtbx/validation/regression/tst_chiral_validation.py' adding 'mmtbx/validation/regression/tst_clashscore.py' adding 'mmtbx/validation/regression/tst_clashscore_2.py' adding 'mmtbx/validation/regression/tst_do_flips_clashscore.py' adding 'mmtbx/validation/regression/tst_experimental.py' adding 'mmtbx/validation/regression/tst_find_region_max_value.py' adding 'mmtbx/validation/regression/tst_hydrogen_addition_clashscore.py' adding 'mmtbx/validation/regression/tst_keep_hydrogens.py' adding 'mmtbx/validation/regression/tst_model_properties.py' adding 'mmtbx/validation/regression/tst_molprobity_1.py' adding 'mmtbx/validation/regression/tst_molprobity_2.py' adding 'mmtbx/validation/regression/tst_molprobity_3.py' adding 'mmtbx/validation/regression/tst_molprobity_4.py' adding 'mmtbx/validation/regression/tst_molprobity_5.py' adding 'mmtbx/validation/regression/tst_molprobity_arguments.py' adding 'mmtbx/validation/regression/tst_mp_geo.py' adding 'mmtbx/validation/regression/tst_mp_geo_chiral_volume_cases.py' adding 'mmtbx/validation/regression/tst_mp_geo_endtoend.py' adding 'mmtbx/validation/regression/tst_mp_validate_bonds.py' adding 'mmtbx/validation/regression/tst_omegalyze.py' adding 'mmtbx/validation/regression/tst_rama_z_01.py' adding 'mmtbx/validation/regression/tst_rama_z_02.py' adding 'mmtbx/validation/regression/tst_ramalyze.py' adding 'mmtbx/validation/regression/tst_ramalyze2.py' adding 'mmtbx/validation/regression/tst_ramalyze_rare.py' adding 'mmtbx/validation/regression/tst_restraints.py' adding 'mmtbx/validation/regression/tst_rna_validate.py' adding 'mmtbx/validation/regression/tst_rotalyze.py' adding 'mmtbx/validation/regression/tst_suitename.py' adding 'mmtbx/validation/regression/tst_symmetry_SS.py' adding 'mmtbx/validation/regression/tst_undowser.py' adding 'mmtbx/validation/regression/tst_undowser2.py' adding 'mmtbx/validation/regression/tst_waters.py' adding 'mmtbx/wwpdb/__init__.py' adding 'mmtbx/wwpdb/rcsb_entry_request.py' adding 'mmtbx/wwpdb/rcsb_web_services.py' adding 'mmtbx/wwpdb/tst_rcsb_entry_request.py' adding 'mmtbx/wwpdb/tst_rcsb_web_services.py' adding 'omptbx/__init__.py' adding 'omptbx/tst.py' adding 'qttbx/__init__.py' adding 'qttbx/phil.py' adding 'qttbx/viewers/__init__.py' adding 'qttbx/viewers/chimerax.py' adding 'rstbx/__init__.py' adding 'rstbx/run_tests.py' adding 'rstbx/utils.py' adding 'rstbx/apps/__init__.py' adding 'rstbx/apps/dual_resolution_helpers.py' adding 'rstbx/apps/slip_helpers.py' adding 'rstbx/apps/spot_markup.py' adding 'rstbx/apps/stills/__init__.py' adding 'rstbx/apps/stills/deltapsi_refinement_preceding_integration.py' adding 'rstbx/apps/stills/dials_refinement_preceding_integration.py' adding 'rstbx/apps/stills/simple_integration.py' adding 'rstbx/apps/stills/stills_integration.py' adding 'rstbx/apps/stills/util.py' adding 'rstbx/array_family/__init__.py' adding 'rstbx/array_family/flex.py' adding 'rstbx/bandpass/__init__.py' adding 'rstbx/bandpass/simulated_annealing.py' adding 'rstbx/bpcx/__init__.py' adding 'rstbx/bpcx/compare_mosflm_xds.py' adding 'rstbx/bpcx/ersatz_misset.py' adding 'rstbx/bpcx/uc1_2.py' adding 'rstbx/bpcx/uc1_2_positions.py' adding 'rstbx/bpcx/uc1_2_positions_idx.py' adding 'rstbx/bpcx/uc1_2_validate.py' adding 'rstbx/bpcx/uc1_2a.py' adding 'rstbx/bpcx/detector_model/__init__.py' adding 'rstbx/bpcx/detector_model/detector.py' adding 'rstbx/bpcx/detector_model/instrument_specifics.py' adding 'rstbx/bpcx/detector_model/tst_detector_model.py' adding 'rstbx/cftbx/__init__.py' adding 'rstbx/cftbx/coordinate_frame_converter.py' adding 'rstbx/cftbx/coordinate_frame_helpers.py' adding 'rstbx/cftbx/tst_coordinate_frame_converter.py' adding 'rstbx/command_line/__init__.py' adding 'rstbx/command_line/example_viewer.py' adding 'rstbx/command_line/index.py' adding 'rstbx/command_line/simage.create.py' adding 'rstbx/command_line/simage.explore_completeness.py' adding 'rstbx/command_line/simage.solver.py' adding 'rstbx/command_line/simage.wx_display.py' adding 'rstbx/command_line/slip_viewer.py' adding 'rstbx/command_line/viewer.py' adding 'rstbx/detectors/__init__.py' adding 'rstbx/detectors/silicon.py' adding 'rstbx/dials_core/__init__.py' adding 'rstbx/dials_core/integration_core.py' adding 'rstbx/diffraction/__init__.py' adding 'rstbx/diffraction/tst_ewald_sphere.py' adding 'rstbx/diffraction/tst_partial_derivatives.py' adding 'rstbx/diffraction/tst_predict.py' adding 'rstbx/diffraction/fastbragg/__init__.py' adding 'rstbx/diffraction/fastbragg/tst_bragg_minimal.py' adding 'rstbx/diffraction/fastbragg/tst_utils_clustering.py' adding 'rstbx/dps_core/__init__.py' adding 'rstbx/dps_core/basis_choice.py' adding 'rstbx/dps_core/cell_assessment.py' adding 'rstbx/dps_core/constrainment.py' adding 'rstbx/dps_core/lepage.py' adding 'rstbx/dps_core/sampling.py' adding 'rstbx/dps_core/tst_iotbx_converter.py' adding 'rstbx/dps_core/zuoreduction.py' adding 'rstbx/indexing/__init__.py' adding 'rstbx/indexing/do_index.py' adding 'rstbx/indexing/tst_auto_monoscan.py' adding 'rstbx/indexing/tst_dataset1.py' adding 'rstbx/indexing_api/__init__.py' adding 'rstbx/indexing_api/basis_choice.py' adding 'rstbx/indexing_api/force_cell.py' adding 'rstbx/indexing_api/lattice.py' adding 'rstbx/indexing_api/nearest_neighbor.py' adding 'rstbx/indexing_api/outlier_detection.py' adding 'rstbx/indexing_api/outlier_procedure.py' adding 'rstbx/indexing_api/sampling.py' adding 'rstbx/indexing_api/test_dps.py' adding 'rstbx/indexing_api/tools.py' adding 'rstbx/new_horizons/__init__.py' adding 'rstbx/new_horizons/index.py' adding 'rstbx/new_horizons/oscillation_shots.py' adding 'rstbx/new_horizons/pixel_spread.py' adding 'rstbx/new_horizons/speckfinder.py' adding 'rstbx/new_horizons/spot_shape.py' adding 'rstbx/new_horizons/stats_index.py' adding 'rstbx/outlier_spots/__init__.py' adding 'rstbx/outlier_spots/fit_distribution.py' adding 'rstbx/phil/__init__.py' adding 'rstbx/phil/phil_preferences.py' adding 'rstbx/phil/preferences.py' adding 'rstbx/phil/scope.py' adding 'rstbx/simage/__init__.py' adding 'rstbx/simage/create.py' adding 'rstbx/simage/explore_completeness.py' adding 'rstbx/simage/integrate_crude.py' adding 'rstbx/simage/refine_uc_cr.py' adding 'rstbx/simage/run_labelit_index.py' adding 'rstbx/simage/run_spotfinder.py' adding 'rstbx/simage/solver.py' adding 'rstbx/simage/tst.py' adding 'rstbx/simage/wx_display.py' adding 'rstbx/simulation/__init__.py' adding 'rstbx/simulation/constants.py' adding 'rstbx/simulation/sim_pdf.py' adding 'rstbx/simulation/sim_utils.py' adding 'rstbx/simulation/tst_xfel1_simple.py' adding 'rstbx/slip_viewer/__init__.py' adding 'rstbx/slip_viewer/calibration_frame.py' adding 'rstbx/slip_viewer/example_frame_plugin_hidden.py' adding 'rstbx/slip_viewer/frame.py' adding 'rstbx/slip_viewer/pyslip.py' adding 'rstbx/slip_viewer/ring_frame.py' adding 'rstbx/slip_viewer/score_frame.py' adding 'rstbx/slip_viewer/slip_display.py' adding 'rstbx/slip_viewer/slip_viewer_image_factory.py' adding 'rstbx/slip_viewer/tile_generation.py' adding 'rstbx/slip_viewer/uc_frame.py' adding 'rstbx/sublattice_support/__init__.py' adding 'rstbx/sublattice_support/change_basis.py' adding 'rstbx/sublattice_support/tst_sublattice.py' adding 'rstbx/symmetry/__init__.py' adding 'rstbx/symmetry/sgtbx_adaptor.py' adding 'rstbx/symmetry/subgroup.py' adding 'rstbx/symmetry/constraints/__init__.py' adding 'rstbx/symmetry/constraints/g_gradients.py' adding 'rstbx/symmetry/constraints/parameter_reduction.py' adding 'rstbx/viewer/__init__.py' adding 'rstbx/viewer/calibration.py' adding 'rstbx/viewer/calibration_frame.py' adding 'rstbx/viewer/controls.py' adding 'rstbx/viewer/dataset.py' adding 'rstbx/viewer/display.py' adding 'rstbx/viewer/drivers.py' adding 'rstbx/viewer/frame.py' adding 'rstbx/viewer/indexing.py' adding 'rstbx/viewer/integration.py' adding 'rstbx/viewer/pixels3d.py' adding 'rstbx/viewer/processing.py' adding 'rstbx/viewer/results_base.py' adding 'rstbx/viewer/spotfinder_frame.py' adding 'rstbx/viewer/spotfinder_wrap.py' adding 'rstbx/viewer/tst.py' adding 'scitbx/__init__.py' adding 'scitbx/cross_entropy.py' adding 'scitbx/cubicle_neighbors.py' adding 'scitbx/differential_evolution.py' adding 'scitbx/direct_search_simulated_annealing.py' adding 'scitbx/fftpack.py' adding 'scitbx/genetic_algorithm_with_mp.py' adding 'scitbx/golden_section_search.py' adding 'scitbx/lbfgsb.py' adding 'scitbx/libtbx_refresh.py' adding 'scitbx/minimizers.py' adding 'scitbx/minpack.py' adding 'scitbx/r3_utils.py' adding 'scitbx/regular_grid_on_unit_sphere.py' adding 'scitbx/restraints.py' adding 'scitbx/run_tests.py' adding 'scitbx/simplex.py' adding 'scitbx/smoothing.py' adding 'scitbx/array_family/__init__.py' adding 'scitbx/array_family/flex.py' adding 'scitbx/array_family/shared.py' adding 'scitbx/array_family/accessors/__init__.py' adding 'scitbx/array_family/boost_python/__init__.py' adding 'scitbx/array_family/boost_python/regression_test.py' adding 'scitbx/array_family/boost_python/tst_cost_of_m_handle_in_af_shared.py' adding 'scitbx/array_family/boost_python/tst_flex.py' adding 'scitbx/array_family/boost_python/tst_flex_argument_passing.py' adding 'scitbx/array_family/boost_python/tst_integer_offsets_vs_pointers.py' adding 'scitbx/array_family/boost_python/tst_numpy_bridge.py' adding 'scitbx/array_family/boost_python/tst_shared.py' adding 'scitbx/array_family/boost_python/tst_smart_selection.py' adding 'scitbx/array_family/detail/__init__.py' adding 'scitbx/boost_python/__init__.py' adding 'scitbx/command_line/__init__.py' adding 'scitbx/command_line/apply_tapenade_hints.py' adding 'scitbx/command_line/generate_error_h.py' adding 'scitbx/command_line/histogram.py' adding 'scitbx/command_line/show_exp_times.py' adding 'scitbx/command_line/show_sizes.py' adding 'scitbx/command_line/unicode_examples.py' adding 'scitbx/dtmin/__init__.py' adding 'scitbx/dtmin/auxiliary.py' adding 'scitbx/dtmin/bounds.py' adding 'scitbx/dtmin/compulsory.py' adding 'scitbx/dtmin/min_logging.py' adding 'scitbx/dtmin/minimizer.py' adding 'scitbx/dtmin/optional.py' adding 'scitbx/dtmin/realsymmetricpseudoinverse.py' adding 'scitbx/dtmin/refinebase.py' adding 'scitbx/dtmin/reparams.py' adding 'scitbx/dtmin/twisted_gaussian.py' adding 'scitbx/dtmin/regression/__init__.py' adding 'scitbx/dtmin/regression/tst_dtmin_basic.py' adding 'scitbx/dtmin/regression/tst_dtmin_booth.py' adding 'scitbx/dtmin/regression/tst_dtmin_twisted.py' adding 'scitbx/error/__init__.py' adding 'scitbx/error/tst_error.py' adding 'scitbx/examples/__init__.py' adding 'scitbx/examples/bootstrap.py' adding 'scitbx/examples/chebyshev_lsq_example.py' adding 'scitbx/examples/flex_array_loops.py' adding 'scitbx/examples/flex_grid.py' adding 'scitbx/examples/functions.py' adding 'scitbx/examples/immoptibox_ports.py' adding 'scitbx/examples/integrating_a_weighted_sinc_function.py' adding 'scitbx/examples/lbfgs_linear_least_squares_fit.py' adding 'scitbx/examples/lbfgs_recipe.py' adding 'scitbx/examples/minimizer_comparisons.py' adding 'scitbx/examples/principal_axes_of_inertia.py' adding 'scitbx/examples/rigid_body_refinement_core.py' adding 'scitbx/examples/bevington/__init__.py' adding 'scitbx/examples/bevington/silver.py' adding 'scitbx/glmtbx/__init__.py' adding 'scitbx/glmtbx/boost_python/__init__.py' adding 'scitbx/glmtbx/tests/__init__.py' adding 'scitbx/glmtbx/tests/tst.py' adding 'scitbx/graph/__init__.py' adding 'scitbx/graph/rigidity.py' adding 'scitbx/graph/rigidity_matrix_symbolic.py' adding 'scitbx/graph/tardy_tree.py' adding 'scitbx/graph/test_cases_tardy_pdb.py' adding 'scitbx/graph/tst_rigidity.py' adding 'scitbx/graph/tst_tardy_tree.py' adding 'scitbx/graph/tst_tardy_tree_find_paths.py' adding 'scitbx/graph/tst_utils.py' adding 'scitbx/graph/utils.py' adding 'scitbx/graphics_utils/__init__.py' adding 'scitbx/graphics_utils/tst.py' adding 'scitbx/iso_surface/__init__.py' adding 'scitbx/iso_surface/tst_iso_surface.py' adding 'scitbx/lbfgs/__init__.py' adding 'scitbx/lbfgs/tst_curvatures.py' adding 'scitbx/lbfgs/tst_ext.py' adding 'scitbx/lbfgs/tst_func_free_line_search.py' adding 'scitbx/lbfgs/tst_lbfgs_fem.py' adding 'scitbx/lbfgs/tst_mpi_split_evaluator.py' adding 'scitbx/lbfgs/dev/__init__.py' adding 'scitbx/lbfgs/dev/run.py' adding 'scitbx/lbfgs/dev/twisted_gaussian.py' adding 'scitbx/linalg/__init__.py' adding 'scitbx/linalg/eigensystem.py' adding 'scitbx/linalg/ext.py' adding 'scitbx/linalg/householder.py' adding 'scitbx/linalg/svd.py' adding 'scitbx/linalg/boost_python/__init__.py' adding 'scitbx/linalg/tests/__init__.py' adding 'scitbx/linalg/tests/tst_cholesky.py' adding 'scitbx/linalg/tests/tst_eigensystem.py' adding 'scitbx/linalg/tests/tst_lapack_dsyev.py' adding 'scitbx/linalg/tests/tst_lapack_svd.py' adding 'scitbx/linalg/tests/tst_matrix.py' adding 'scitbx/linalg/tests/tst_svd.py' adding 'scitbx/line_search/__init__.py' adding 'scitbx/lstbx/__init__.py' adding 'scitbx/lstbx/normal_eqns.py' adding 'scitbx/lstbx/normal_eqns_solving.py' adding 'scitbx/lstbx/benchmarks/__init__.py' adding 'scitbx/lstbx/boost_python/__init__.py' adding 'scitbx/lstbx/tests/__init__.py' adding 'scitbx/lstbx/tests/test_problems.py' adding 'scitbx/lstbx/tests/tst_normal_equations.py' adding 'scitbx/math/__init__.py' adding 'scitbx/math/besselk.py' adding 'scitbx/math/breakpoint.py' adding 'scitbx/math/chebyshev_lsq_fit.py' adding 'scitbx/math/clustering.py' adding 'scitbx/math/cubic_spline.py' adding 'scitbx/math/curve_fitting.py' adding 'scitbx/math/des_3_100_13.py' adding 'scitbx/math/des_3_240_21.py' adding 'scitbx/math/distributions.py' adding 'scitbx/math/euler_angles.py' adding 'scitbx/math/ext.py' adding 'scitbx/math/farey.py' adding 'scitbx/math/fit_peak.py' adding 'scitbx/math/fit_quadratic_function.py' adding 'scitbx/math/fliege_mayer_400.py' adding 'scitbx/math/fliege_mayer_900.py' adding 'scitbx/math/fliege_mayer_900_ylm.py' adding 'scitbx/math/gaussian.py' adding 'scitbx/math/gaussian_fit.py' adding 'scitbx/math/gumbel.py' adding 'scitbx/math/incremental_SO3_sampling.py' adding 'scitbx/math/lefebvre.py' adding 'scitbx/math/minimum_covering_ellipsoid.py' adding 'scitbx/math/multiple_superposition.py' adding 'scitbx/math/periodogram.py' adding 'scitbx/math/scale_curves.py' adding 'scitbx/math/sieve_of_eratosthenes.py' adding 'scitbx/math/so3_lie_algebra.py' adding 'scitbx/math/spe.py' adding 'scitbx/math/sphere_sphere_intersection.py' adding 'scitbx/math/superpose.py' adding 'scitbx/math/tst_2d_zernike.py' adding 'scitbx/math/tst_bessel_zeros.py' adding 'scitbx/math/tst_multivariate_moments.py' adding 'scitbx/math/tst_so3_lie_algebra.py' adding 'scitbx/math/tst_undirected_graph.py' adding 'scitbx/math/tst_zernike.py' adding 'scitbx/math/tst_zernike_mom.py' adding 'scitbx/math/undirected_graph.py' adding 'scitbx/math/zernike_align_fft.py' adding 'scitbx/math/boost_python/__init__.py' adding 'scitbx/math/dev/__init__.py' adding 'scitbx/math/erf/__init__.py' adding 'scitbx/math/tests/__init__.py' adding 'scitbx/math/tests/tst_angle_derivative.py' adding 'scitbx/math/tests/tst_bessel.py' adding 'scitbx/math/tests/tst_clustering.py' adding 'scitbx/math/tests/tst_cubic_equation.py' adding 'scitbx/math/tests/tst_curve_fitting.py' adding 'scitbx/math/tests/tst_dmatrix.py' adding 'scitbx/math/tests/tst_error_propagation_matrix_inverse.py' adding 'scitbx/math/tests/tst_euler_angles.py' adding 'scitbx/math/tests/tst_exp_functions.py' adding 'scitbx/math/tests/tst_fit_peak.py' adding 'scitbx/math/tests/tst_fit_quadratic_function.py' adding 'scitbx/math/tests/tst_g_function.py' adding 'scitbx/math/tests/tst_gaussian.py' adding 'scitbx/math/tests/tst_gaussian_fit_1d_analytical.py' adding 'scitbx/math/tests/tst_gcd.py' adding 'scitbx/math/tests/tst_halton.py' adding 'scitbx/math/tests/tst_line_search.py' adding 'scitbx/math/tests/tst_math.py' adding 'scitbx/math/tests/tst_minimum_covering_ellipsoid.py' adding 'scitbx/math/tests/tst_orthonormal_basis.py' adding 'scitbx/math/tests/tst_periodogram.py' adding 'scitbx/math/tests/tst_quadrature.py' adding 'scitbx/math/tests/tst_r3_rotation.py' adding 'scitbx/math/tests/tst_resample.py' adding 'scitbx/math/tests/tst_similarity_indices.py' adding 'scitbx/math/tests/tst_superpose.py' adding 'scitbx/math/tests/tst_tetrahedron.py' adding 'scitbx/math/tests/tst_uniform_rotation_matrix.py' adding 'scitbx/math/tests/tst_weighted_correlation.py' adding 'scitbx/matrix/__init__.py' adding 'scitbx/matrix/row_echelon.py' adding 'scitbx/matrix/tests/__init__.py' adding 'scitbx/matrix/tests/tst_householder.py' adding 'scitbx/matrix/tests/tst_row_echelon.py' adding 'scitbx/misc/__init__.py' adding 'scitbx/python_utils/__init__.py' adding 'scitbx/python_utils/command_line.py' adding 'scitbx/python_utils/dicts.py' adding 'scitbx/python_utils/graph_tools.py' adding 'scitbx/python_utils/misc.py' adding 'scitbx/python_utils/random_transform.py' adding 'scitbx/python_utils/robust_statistics.py' adding 'scitbx/python_utils/signal_utils.py' adding 'scitbx/python_utils/tst_graph.py' adding 'scitbx/python_utils/tst_random_transform.py' adding 'scitbx/python_utils/tst_robust.py' adding 'scitbx/random/__init__.py' adding 'scitbx/random/boost_python/__init__.py' adding 'scitbx/random/tests/__init__.py' adding 'scitbx/random/tests/tst_random.py' adding 'scitbx/rigid_body/__init__.py' adding 'scitbx/rigid_body/tst.py' adding 'scitbx/rigid_body/essence/__init__.py' adding 'scitbx/rigid_body/essence/body_lib.py' adding 'scitbx/rigid_body/essence/featherstone.py' adding 'scitbx/rigid_body/essence/joint_lib.py' adding 'scitbx/rigid_body/essence/make_bundles.py' adding 'scitbx/rigid_body/essence/spatial_lib.py' adding 'scitbx/rigid_body/essence/tardy.py' adding 'scitbx/rigid_body/essence/tst_basic.py' adding 'scitbx/rigid_body/essence/tst_energy_plots.py' adding 'scitbx/rigid_body/essence/tst_tardy.py' adding 'scitbx/rigid_body/essence/wx_tardy.py' adding 'scitbx/rigid_body/proto/__init__.py' adding 'scitbx/rigid_body/proto/featherstone.py' adding 'scitbx/rigid_body/proto/free_motion_reference_impl.py' adding 'scitbx/rigid_body/proto/joint_lib.py' adding 'scitbx/rigid_body/proto/test_simulation.py' adding 'scitbx/rigid_body/proto/test_utils.py' adding 'scitbx/rigid_body/proto/tst_featherstone.py' adding 'scitbx/rigid_body/proto/tst_free_motion.py' adding 'scitbx/rigid_body/proto/tst_free_motion_hard.py' adding 'scitbx/rigid_body/proto/tst_joint_lib.py' adding 'scitbx/rigid_body/proto/tst_molecules.py' adding 'scitbx/rigid_body/proto/tst_singular.py' adding 'scitbx/rigid_body/proto/tst_spherical_refinement.py' adding 'scitbx/rigid_body/proto/utils.py' adding 'scitbx/rigid_body/proto/wx_free_motion.py' adding 'scitbx/rigid_body/proto/wx_joint_lib.py' adding 'scitbx/rigid_body/proto/wx_molecules.py' adding 'scitbx/serialization/__init__.py' adding 'scitbx/slatec/__init__.py' adding 'scitbx/source_generators/__init__.py' adding 'scitbx/source_generators/flex_fwd_h.py' adding 'scitbx/source_generators/lbfgs_fem.py' adding 'scitbx/source_generators/utils.py' adding 'scitbx/source_generators/array_family/__init__.py' adding 'scitbx/source_generators/array_family/generate_algebras.py' adding 'scitbx/source_generators/array_family/generate_all.py' adding 'scitbx/source_generators/array_family/generate_apply.py' adding 'scitbx/source_generators/array_family/generate_operator_functors.py' adding 'scitbx/source_generators/array_family/generate_operator_traits_builtin.py' adding 'scitbx/source_generators/array_family/generate_reductions.py' adding 'scitbx/source_generators/array_family/generate_std_imports.py' adding 'scitbx/source_generators/array_family/operator_functor_info.py' adding 'scitbx/sparse/__init__.py' adding 'scitbx/sparse/boost_python/__init__.py' adding 'scitbx/sparse/tests/__init__.py' adding 'scitbx/sparse/tests/tst_lu_factorization.py' adding 'scitbx/sparse/tests/tst_sparse.py' adding 'scitbx/stdlib/__init__.py' adding 'scitbx/stl/__init__.py' adding 'scitbx/stl/map.py' adding 'scitbx/stl/set.py' adding 'scitbx/stl/tst_map.py' adding 'scitbx/stl/tst_set.py' adding 'scitbx/stl/tst_vector.py' adding 'scitbx/stl/vector.py' adding 'scitbx/suffixtree/__init__.py' adding 'scitbx/suffixtree/single.py' adding 'scitbx/suffixtree/boost_python/__init__.py' adding 'scitbx/suffixtree/test/__init__.py' adding 'scitbx/suffixtree/test/tst_single.py' adding 'scitbx/tests/__init__.py' adding 'scitbx/tests/differential_evolution.py' adding 'scitbx/tests/direct_search_simulated_annealing.py' adding 'scitbx/tests/golden_section_search.py' adding 'scitbx/tests/simplex.py' adding 'scitbx/tests/tst_basic.py' adding 'scitbx/tests/tst_cubicle_neighbors.py' adding 'scitbx/tests/tst_genetic_algorithm_with_mp.py' adding 'scitbx/tests/tst_minimizer_lbfgs_general.py' adding 'scitbx/tests/tst_r3_utils.py' adding 'scitbx/tests/tst_regular_grid_on_unit_sphere.py' adding 'scitbx/tests/tst_smoothing.py' adding 'scitbx/wigner/__init__.py' adding 'scitbx/wigner/tst_wigner3j.py' adding 'serialtbx/__init__.py' adding 'serialtbx/detector/__init__.py' adding 'serialtbx/detector/cspad.py' adding 'serialtbx/detector/jungfrau.py' adding 'serialtbx/detector/rayonix.py' adding 'serialtbx/detector/xtc.py' adding 'serialtbx/detector/legacy_metrology/__init__.py' adding 'serialtbx/detector/legacy_metrology/cspad_detector.py' adding 'serialtbx/detector/legacy_metrology/generic_detector.py' adding 'serialtbx/detector/legacy_metrology/metrology.py' adding 'serialtbx/mono_simulation/__init__.py' adding 'serialtbx/mono_simulation/max_like.py' adding 'serialtbx/mono_simulation/util.py' adding 'serialtbx/util/__init__.py' adding 'serialtbx/util/construct_frame.py' adding 'serialtbx/util/energy_scan_notch_finder.py' adding 'serialtbx/util/time.py' adding 'simtbx/__init__.py' adding 'simtbx/run_tests.py' adding 'simtbx/diffBragg/__init__.py' adding 'simtbx/diffBragg/attr_list.py' adding 'simtbx/diffBragg/device.py' adding 'simtbx/diffBragg/ensemble_refine_launcher.py' adding 'simtbx/diffBragg/hopper_ensemble_utils.py' adding 'simtbx/diffBragg/hopper_io.py' adding 'simtbx/diffBragg/hopper_utils.py' adding 'simtbx/diffBragg/mpi_logger.py' adding 'simtbx/diffBragg/parameter_errors.py' adding 'simtbx/diffBragg/phil.py' adding 'simtbx/diffBragg/prep_stage2_input.py' adding 'simtbx/diffBragg/psf.py' adding 'simtbx/diffBragg/stage_two_utils.py' adding 'simtbx/diffBragg/utils.py' adding 'simtbx/diffBragg/refiners/__init__.py' adding 'simtbx/diffBragg/refiners/base_refiner.py' adding 'simtbx/diffBragg/refiners/geometry.py' adding 'simtbx/diffBragg/refiners/parameters.py' adding 'simtbx/diffBragg/refiners/stage_two_refiner.py' adding 'simtbx/diffBragg/refiners/crystal_systems/__init__.py' adding 'simtbx/diffBragg/refiners/crystal_systems/hexagonal.py' adding 'simtbx/diffBragg/refiners/crystal_systems/manager.py' adding 'simtbx/diffBragg/refiners/crystal_systems/monoclinic.py' adding 'simtbx/diffBragg/refiners/crystal_systems/orthorhombic.py' adding 'simtbx/diffBragg/refiners/crystal_systems/tetragonal.py' adding 'simtbx/gpu/__init__.py' adding 'simtbx/gpu/tst_exafel_api.py' adding 'simtbx/gpu/tst_gpu_multisource_background.py' adding 'simtbx/gpu/tst_shoeboxes.py' adding 'simtbx/kokkos/__init__.py' adding 'simtbx/kokkos/tst_kokkos_lib.py' adding 'simtbx/modeling/FormatHDF5AttributeGeometry.py' adding 'simtbx/modeling/__init__.py' adding 'simtbx/modeling/forward_models.py' adding 'simtbx/modeling/predictions.py' adding 'simtbx/nanoBragg/__init__.py' adding 'simtbx/nanoBragg/anisotropic_mosaicity.py' adding 'simtbx/nanoBragg/nanoBragg_beam.py' adding 'simtbx/nanoBragg/nanoBragg_crystal.py' adding 'simtbx/nanoBragg/nanoBragg_gui_dialogs.py' adding 'simtbx/nanoBragg/nanoBragg_gui_frames.py' adding 'simtbx/nanoBragg/nanoBragg_gui_init.py' adding 'simtbx/nanoBragg/nanoBragg_input.py' adding 'simtbx/nanoBragg/nanoBragg_threads.py' adding 'simtbx/nanoBragg/sim_data.py' adding 'simtbx/nanoBragg/tst_anisotropic_mosaicity.py' adding 'simtbx/nanoBragg/tst_gauss_argchk.py' adding 'simtbx/nanoBragg/tst_gaussian_mosaicity.py' adding 'simtbx/nanoBragg/tst_gaussian_mosaicity2.py' adding 'simtbx/nanoBragg/tst_multisource_background.py' adding 'simtbx/nanoBragg/tst_nanoBragg_basic.py' adding 'simtbx/nanoBragg/tst_nanoBragg_cbf_write.py' adding 'simtbx/nanoBragg/tst_nanoBragg_minimal.py' adding 'simtbx/nanoBragg/tst_nanoBragg_mosaic.py' adding 'simtbx/nanoBragg/tst_nanoBragg_multipanel.py' adding 'simtbx/nanoBragg/tst_nanoBragg_pilatus.py' adding 'simtbx/nanoBragg/utils.py' adding 'simtbx/pixel/__init__.py' adding 'smtbx/__init__.py' adding 'smtbx/development.py' adding 'smtbx/libtbx_refresh.py' adding 'smtbx/run_tests.py' adding 'smtbx/utils.py' adding 'smtbx/ab_initio/__init__.py' adding 'smtbx/ab_initio/charge_flipping.py' adding 'smtbx/ab_initio/tests/__init__.py' adding 'smtbx/ab_initio/tests/tst_ab_initio_ext.py' adding 'smtbx/ab_initio/tests/tst_charge_flipping.py' adding 'smtbx/absolute_structure/__init__.py' adding 'smtbx/array_family/__init__.py' adding 'smtbx/command_line/__init__.py' adding 'smtbx/command_line/absolute_structure.py' adding 'smtbx/command_line/anom_refine.py' adding 'smtbx/command_line/benchmark_refinement.py' adding 'smtbx/command_line/masks.py' adding 'smtbx/command_line/refine.py' adding 'smtbx/masks/__init__.py' adding 'smtbx/refinement/__init__.py' adding 'smtbx/refinement/least_squares.py' adding 'smtbx/refinement/weighting_schemes.py' adding 'smtbx/refinement/constraints/__init__.py' adding 'smtbx/refinement/constraints/adp.py' adding 'smtbx/refinement/constraints/all.py' adding 'smtbx/refinement/constraints/fpfdp.py' adding 'smtbx/refinement/constraints/occupancy.py' adding 'smtbx/refinement/constraints/rigid.py' adding 'smtbx/refinement/constraints/site.py' adding 'smtbx/refinement/constraints/geometrical/__init__.py' adding 'smtbx/refinement/constraints/geometrical/all.py' adding 'smtbx/refinement/constraints/geometrical/hydrogens.py' adding 'smtbx/refinement/constraints/tests/__init__.py' adding 'smtbx/refinement/constraints/tests/tst_constrained_structure.py' adding 'smtbx/refinement/constraints/tests/tst_direction.py' adding 'smtbx/refinement/constraints/tests/tst_disorder.py' adding 'smtbx/refinement/constraints/tests/tst_lbfgs.py' adding 'smtbx/refinement/constraints/tests/tst_occupancies.py' adding 'smtbx/refinement/constraints/tests/tst_reparametrisation.py' adding 'smtbx/refinement/constraints/tests/tst_rigid.py' adding 'smtbx/refinement/constraints/tests/tst_same_group.py' adding 'smtbx/refinement/restraints/__init__.py' adding 'smtbx/refinement/restraints/adp_restraints.py' adding 'smtbx/refinement/restraints/origin_fixing_restraints.py' adding 'smtbx/regression/__init__.py' adding 'smtbx/regression/tst_commandline_anomrefine.py' adding 'smtbx/regression/tst_commandline_refine.py' adding 'smtbx/regression/test_data/__init__.py' adding 'smtbx/source_generators/__init__.py' adding 'smtbx/source_generators/flex_fwd_h.py' adding 'smtbx/stl/__init__.py' adding 'smtbx/stl/map.py' adding 'smtbx/structure_factors/__init__.py' adding 'smtbx/structure_factors/direct/__init__.py' adding 'spotfinder/__init__.py' adding 'spotfinder/exception.py' adding 'spotfinder/run_tests.py' adding 'spotfinder/applications/__init__.py' adding 'spotfinder/applications/image_viewer.py' adding 'spotfinder/applications/practical_heuristics.py' adding 'spotfinder/applications/signal_strength.py' adding 'spotfinder/applications/stats_distl.py' adding 'spotfinder/applications/wrappers.py' adding 'spotfinder/applications/heuristic_tbx/__init__.py' adding 'spotfinder/applications/heuristic_tbx/ice2.py' adding 'spotfinder/applications/heuristic_tbx/ice_nztt.py' adding 'spotfinder/applications/heuristic_tbx/method2_resolution.py' adding 'spotfinder/applications/heuristic_tbx/spotreporter.py' adding 'spotfinder/applications/xfel/__init__.py' adding 'spotfinder/applications/xfel/correction_vector_plot.py' adding 'spotfinder/applications/xfel/cxi_phil.py' adding 'spotfinder/applications/xfel/cxi_run3.py' adding 'spotfinder/array_family/__init__.py' adding 'spotfinder/array_family/flex.py' adding 'spotfinder/command_line/__init__.py' adding 'spotfinder/command_line/find_active_area.py' adding 'spotfinder/command_line/image_viewer.py' adding 'spotfinder/command_line/mp_spotfinder_server_read_file.py' adding 'spotfinder/command_line/signal_strength.py' adding 'spotfinder/command_line/sweep_strength.py' adding 'spotfinder/command_line/thin_client.py' adding 'spotfinder/core_toolbox/__init__.py' adding 'spotfinder/core_toolbox/close_spots_detail.py' adding 'spotfinder/diffraction/__init__.py' adding 'spotfinder/diffraction/geometry.py' adding 'spotfinder/diffraction/imagefiles.py' adding 'spotfinder/dxtbx_toolbox/__init__.py' adding 'spotfinder/dxtbx_toolbox/practical_heuristics.py' adding 'spotfinder/math_support/__init__.py' adding 'spotfinder/math_support/sphere_formulae.py' adding 'spotfinder/servers/__init__.py' adding 'spotfinder/servers/adsc_client.py' adding 'spotfinder/servers/apache.py' adding 'spotfinder/servers/apache_bcsb.py' adding 'spotfinder/servers/apache_dials.py' adding 'spotfinder/servers/apache_utils.py' adding 'spotfinder/servers/bcsb_client_example.py' adding 'spotfinder/servers/general_client_example.py' adding 'spotfinder/servers/mp_spotfinder_server_is_alive.py' adding 'spotfinder/servers/mp_spotfinder_server_read_file.py' adding 'spotfinder/servers/multipart_encoder.py' adding 'spotfinder/servers/pilatus_client.py' adding 'spotfinder/servers/specific_client_example.py' adding 'spotfinder/servers/spotfinder_server_client_push.py' adding 'spotfinder/servers/spotfinder_server_read_file.py' adding 'spotfinder/servers/thin_client.py' adding 'wxtbx/__init__.py' adding 'wxtbx/adp_statistics.py' adding 'wxtbx/anomalous_scattering.py' adding 'wxtbx/app.py' adding 'wxtbx/b_plot.py' adding 'wxtbx/bitmaps.py' adding 'wxtbx/browser.py' adding 'wxtbx/checklistctrl.py' adding 'wxtbx/custom_restraints.py' adding 'wxtbx/ensemble_validation.py' adding 'wxtbx/errors.py' adding 'wxtbx/heavy_atoms.py' adding 'wxtbx/icons.py' adding 'wxtbx/info_panels.py' adding 'wxtbx/layout.py' adding 'wxtbx/listeditor.py' adding 'wxtbx/metallicbutton.py' adding 'wxtbx/misc_dialogs.py' adding 'wxtbx/monitor.py' adding 'wxtbx/mtz_dump.py' adding 'wxtbx/path_dialogs.py' adding 'wxtbx/pdb_editor.py' adding 'wxtbx/polygon.py' adding 'wxtbx/polygon_db_viewer.py' adding 'wxtbx/process_control.py' adding 'wxtbx/qstat_view.py' adding 'wxtbx/segmentedctrl.py' adding 'wxtbx/sequence_view.py' adding 'wxtbx/symmetry_dialog.py' adding 'wxtbx/tables.py' adding 'wxtbx/utils.py' adding 'wxtbx/windows.py' adding 'wxtbx/wx4_compatibility.py' adding 'wxtbx/xtriage.py' adding 'wxtbx/command_line/__init__.py' adding 'wxtbx/command_line/anomalous_differences_histogram.py' adding 'wxtbx/command_line/b_plot.py' adding 'wxtbx/command_line/inspect_r_free_flags.py' adding 'wxtbx/command_line/loggraph.py' adding 'wxtbx/command_line/pdb_editor.py' adding 'wxtbx/command_line/pdb_statistics.py' adding 'wxtbx/command_line/plan_sad_experiment.py' adding 'wxtbx/command_line/plot_anomalous_scattering.py' adding 'wxtbx/command_line/show_file_info.py' adding 'wxtbx/command_line/wxpython.py' adding 'wxtbx/command_line/xtriage.py' adding 'wxtbx/phil_controls/__init__.py' adding 'wxtbx/phil_controls/array_label.py' adding 'wxtbx/phil_controls/boolctrl.py' adding 'wxtbx/phil_controls/choice.py' adding 'wxtbx/phil_controls/choice_multi.py' adding 'wxtbx/phil_controls/floatctrl.py' adding 'wxtbx/phil_controls/floats.py' adding 'wxtbx/phil_controls/intctrl.py' adding 'wxtbx/phil_controls/ints.py' adding 'wxtbx/phil_controls/misc_ctrls.py' adding 'wxtbx/phil_controls/numbers.py' adding 'wxtbx/phil_controls/path.py' adding 'wxtbx/phil_controls/simple_dialogs.py' adding 'wxtbx/phil_controls/space_group.py' adding 'wxtbx/phil_controls/strctrl.py' adding 'wxtbx/phil_controls/strings.py' adding 'wxtbx/phil_controls/symop.py' adding 'wxtbx/phil_controls/text_base.py' adding 'wxtbx/phil_controls/tree.py' adding 'wxtbx/phil_controls/tribool.py' adding 'wxtbx/phil_controls/unit_cell.py' adding 'wxtbx/plots/__init__.py' adding 'wxtbx/plots/emringer.py' adding 'wxtbx/plots/molprobity.py' adding 'wxtbx/reports/__init__.py' adding 'wxtbx/reports/blast.py' adding 'wxtbx/reports/pdb_symmetry.py' adding 'xcif/__init__.py' adding 'xcif/run_tests.py' adding 'xcif/benchmarks/__init__.py' adding 'xcif/benchmarks/run_benchmarks.py' adding 'xcif/regression/__init__.py' adding 'xcif/regression/tst_api_compat.py' adding 'xcif/regression/tst_bindings.py' adding 'xcif/regression/tst_example_parse.py' adding 'xcif/regression/tst_example_tokenize.py' adding 'xcif/regression/tst_gil_release.py' adding 'xcif/regression/tst_iotbx_cif_reader_engine.py' adding 'xcif/regression/tst_iotbx_cif_reader_parity.py' adding 'xcif/regression/tst_memory.py' adding 'xcif/regression/tst_non_strict_mode.py' adding 'xcif/regression/tst_parse_verify.py' adding 'xcif/regression/tst_pdb_coordinates.py' adding 'xcif/regression/tst_pdb_sf.py' adding 'xcif/regression/tst_quoted_string_delimiter.py' adding 'xcif/regression/tst_roundtrip.py' adding 'xcif/regression/tst_semicolon_field_strict.py' adding 'xcif/regression/tst_string_interning.py' adding 'xcif/regression/tst_utf8.py' adding 'cctbx-2023.12.dist-info/METADATA' adding 'cctbx-2023.12.dist-info/WHEEL' adding 'cctbx-2023.12.dist-info/top_level.txt' adding 'cctbx-2023.12.dist-info/RECORD' removing build/bdist.linux-x86_64/wheel Successfully built cctbx-2023.12-py3-none-any.whl I: pybuild plugin_pyproject:168: Unpacking wheel built for python3.13 with "installer" module dh_auto_build --sourcedirectory=dxtbx -- --name dxtbx pybuild --build -i python{version} -p "3.14 3.13" --name dxtbx --dir dxtbx --parallel=6 I: pybuild plugin_pyproject:142: Building wheel for python3.14 with "build" module I: pybuild base:385: python3.14 -m build --skip-dependency-check --no-isolation --wheel --outdir /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_dxtbx * Building wheel... Successfully built dxtbx-3.28.0-py3-none-any.whl I: pybuild plugin_pyproject:168: Unpacking wheel built for python3.14 with "installer" module I: pybuild plugin_pyproject:142: Building wheel for python3.13 with "build" module I: pybuild base:385: python3.13 -m build --skip-dependency-check --no-isolation --wheel --outdir /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_dxtbx * Building wheel... Successfully built dxtbx-3.28.0-py3-none-any.whl I: pybuild plugin_pyproject:168: Unpacking wheel built for python3.13 with "installer" module dh_auto_build -- --name cctbx -s custom --build-args="cd {build_dir}_ && ./bin/libtbx.scons -j 6" pybuild --build -i python{version} -p "3.14 3.13" --name cctbx -s custom --build-args="cd {build_dir}_ && ./bin/libtbx.scons -j 6" --parallel=6 I: pybuild base:385: cd '/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build'_ && ./bin/libtbx.scons -j 6 scons: Reading SConscript files ... libtbx.scons: using flags from initial environment: CXXFLAGS = -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 CFLAGS = -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection CPPFLAGS = -Wdate-time -D_FORTIFY_SOURCE=2 LDFLAGS = -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 libtbx.scons: OpenMP is disabled. BOOST_PYTHON_LIB_VERSION: boost_python314 BOOST_NUMPY_LIB_VERSION: boost_numpy314 BOOST_VERSION: 109000 Ignored: [Errno 2] No such file or directory: '/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/exe_dev/cbflib.tst_memory' Ignored: [Errno 2] No such file or directory: '/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/exe_dev/cctbx.getting_started' Ignored: [Errno 2] No such file or directory: '/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/exe_dev/cctbx.sym_equiv_sites' Ignored: [Errno 2] No such file or directory: '/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/exe_dev/cctbx.convert_ccp4_symop_lib' Ignored: [Errno 2] No such file or directory: '/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/exe_dev/cctbx.lattice_symmetry' Ignored: [Errno 2] No such file or directory: '/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/exe_dev/cctbx.find_distances' Ignored: [Errno 2] No such file or directory: '/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/exe_dev/cctbx.sys_abs_equiv_space_groups' scons: done reading SConscript files. scons: Building targets ... g++ -o annlib_adaptbx/ann/ann_adaptor.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/annlib_adaptbx/include -Iannlib_adaptbx/src -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/src -Iannlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/ann/ann_adaptor.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o annlib_adaptbx/ann/boost_python/annlib_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/annlib_adaptbx/include -I/usr/include/python3.14 -Iannlib_adaptbx/ann/boost_python/src -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/ann/boost_python/src -Iannlib_adaptbx/ann/boost_python/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/ann/boost_python/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/ann/boost_python/annlib_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/maptbx/blobs_cmd.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/maptbx/blobs_cmd.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/maptbx/asymmetric_map.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/maptbx/asymmetric_map.cpp g++ -o cctbx/maptbx/skeletons.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/maptbx/skeletons.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/maptbx/dijkstra.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/maptbx/dijkstra.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/xplor/map_reader.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/xplor/map_reader.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/xplor/map_writer.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/xplor/map_writer.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/direct_space_asu/proto/cut.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/direct_space_asu/proto/cut.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/libiotbx_xplor.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libiotbx_xplor.so.0 iotbx/xplor/map_reader.o iotbx/xplor/map_writer.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lm Create symlinks for: 'lib/libiotbx_xplor.so.0.0.1' 'lib/libiotbx_xplor.so.0'->'lib/libiotbx_xplor.so.0.0.1' 'lib/libiotbx_xplor.so'->'lib/libiotbx_xplor.so.0.0.1' g++ -o cctbx/sgtbx/direct_space_asu/proto/reference_table.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/direct_space_asu/proto/reference_table.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/direct_space_asu/proto/direct_space_asu.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/direct_space_asu/proto/direct_space_asu.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/basic.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/eltbx/basic.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/xray_scattering/it1992.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/eltbx/xray_scattering/it1992.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/xray_scattering/wk1995.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/eltbx/xray_scattering/wk1995.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/xray_scattering/n_gaussian_raw.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/eltbx/xray_scattering/n_gaussian_raw.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/xray_scattering/n_gaussian.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/eltbx/xray_scattering/n_gaussian.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/fp_fdp.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/eltbx/fp_fdp.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/henke.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include cctbx/eltbx/henke.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/henke_tables_01_12.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include cctbx/eltbx/henke_tables_01_12.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/henke_tables_13_24.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include cctbx/eltbx/henke_tables_13_24.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/henke_tables_25_36.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include cctbx/eltbx/henke_tables_25_36.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/henke_tables_37_48.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include cctbx/eltbx/henke_tables_37_48.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/henke_tables_49_60.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include cctbx/eltbx/henke_tables_49_60.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/henke_tables_61_72.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include cctbx/eltbx/henke_tables_61_72.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/henke_tables_73_84.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include cctbx/eltbx/henke_tables_73_84.cpp g++ -o cctbx/eltbx/henke_tables_85_92.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include cctbx/eltbx/henke_tables_85_92.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/icsd_radii.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/eltbx/icsd_radii.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/covalent_radii.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/eltbx/covalent_radii.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/neutron.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/eltbx/neutron.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/sasaki.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include cctbx/eltbx/sasaki.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/sasaki_tables_01_12.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include cctbx/eltbx/sasaki_tables_01_12.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/sasaki_tables_13_24.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include cctbx/eltbx/sasaki_tables_13_24.cpp g++ -o cctbx/eltbx/sasaki_tables_25_36.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include cctbx/eltbx/sasaki_tables_25_36.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/sasaki_tables_37_48.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include cctbx/eltbx/sasaki_tables_37_48.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/sasaki_tables_49_60.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include cctbx/eltbx/sasaki_tables_49_60.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/sasaki_tables_61_72.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include cctbx/eltbx/sasaki_tables_61_72.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/sasaki_tables_73_82.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include cctbx/eltbx/sasaki_tables_73_82.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/tiny_pse.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/eltbx/tiny_pse.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/wavelengths.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/eltbx/wavelengths.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/electron_scattering/peng1996.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/eltbx/electron_scattering/peng1996.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/attenuation_coefficient.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/eltbx/attenuation_coefficient.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/asu.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/asu.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/bins.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/bins.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/index_generator.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/index_generator.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/index_span.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/index_span.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/match_bijvoet_mates.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/match_bijvoet_mates.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/match_indices.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/match_indices.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/match_multi_indices.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/match_multi_indices.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/sym_equiv.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/sym_equiv.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/bricks.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/bricks.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/change_of_basis_op.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/change_of_basis_op.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/find_affine.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/find_affine.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/group_codes.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/group_codes.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/hall_in.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/hall_in.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/lattice_tr.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/lattice_tr.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/lattice_symmetry.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/lattice_symmetry.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/miller.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/miller.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/reciprocal_space_asu.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/reciprocal_space_asu.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/reciprocal_space_ref_asu.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/reciprocal_space_ref_asu.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/rot_mx.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/rot_mx.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/rot_mx_info.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/rot_mx_info.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/row_echelon_solve.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/row_echelon_solve.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/rt_mx.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/rt_mx.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/select_generators.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/select_generators.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/seminvariant.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/seminvariant.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/site_symmetry.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/space_group.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/space_group.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/space_group_type.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/space_group_type.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/symbols.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/symbols.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/tensor_rank_2.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensor_rank_2.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/tr_group.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tr_group.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/tr_vec.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tr_vec.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/utils.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/utils.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/wyckoff.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/wyckoff.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/reference_settings/hall_symbol_table.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/reference_settings/hall_symbol_table.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/reference_settings/matrix_group_code_table.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/reference_settings/matrix_group_code_table.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/reference_settings/normalizer.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/reference_settings/normalizer.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/reference_settings/wyckoff.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/reference_settings/wyckoff.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/uctbx/uctbx.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/uctbx/uctbx.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/uctbx/spoil_optimization.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/uctbx/spoil_optimization.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/uctbx/crystal_orientation.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/uctbx/crystal_orientation.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o omptbx/stubs.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/omptbx/stubs.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/libomptbx.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libomptbx.so.0 omptbx/stubs.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread Create symlinks for: 'lib/libomptbx.so.0.0.1' 'lib/libomptbx.so.0'->'lib/libomptbx.so.0.0.1' 'lib/libomptbx.so'->'lib/libomptbx.so.0.0.1' g++ -o boost_adaptbx/graph/breadth_first_search_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/graph/breadth_first_search_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o boost_adaptbx/graph/clustering_algorithm_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/graph/clustering_algorithm_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o boost_adaptbx/graph/connected_component_algorithm_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/graph/connected_component_algorithm_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o boost_adaptbx/graph/graph_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/graph/graph_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/libcctbx.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libcctbx.so.0 cctbx/eltbx/basic.o cctbx/eltbx/xray_scattering/it1992.o cctbx/eltbx/xray_scattering/wk1995.o cctbx/eltbx/xray_scattering/n_gaussian_raw.o cctbx/eltbx/xray_scattering/n_gaussian.o cctbx/eltbx/fp_fdp.o cctbx/eltbx/henke.o cctbx/eltbx/henke_tables_01_12.o cctbx/eltbx/henke_tables_13_24.o cctbx/eltbx/henke_tables_25_36.o cctbx/eltbx/henke_tables_37_48.o cctbx/eltbx/henke_tables_49_60.o cctbx/eltbx/henke_tables_61_72.o cctbx/eltbx/henke_tables_73_84.o cctbx/eltbx/henke_tables_85_92.o cctbx/eltbx/icsd_radii.o cctbx/eltbx/covalent_radii.o cctbx/eltbx/neutron.o cctbx/eltbx/sasaki.o cctbx/eltbx/sasaki_tables_01_12.o cctbx/eltbx/sasaki_tables_13_24.o cctbx/eltbx/sasaki_tables_25_36.o cctbx/eltbx/sasaki_tables_37_48.o cctbx/eltbx/sasaki_tables_49_60.o cctbx/eltbx/sasaki_tables_61_72.o cctbx/eltbx/sasaki_tables_73_82.o cctbx/eltbx/tiny_pse.o cctbx/eltbx/wavelengths.o cctbx/eltbx/electron_scattering/peng1996.o cctbx/eltbx/attenuation_coefficient.o cctbx/miller/asu.o cctbx/miller/bins.o cctbx/miller/index_generator.o cctbx/miller/index_span.o cctbx/miller/match_bijvoet_mates.o cctbx/miller/match_indices.o cctbx/miller/match_multi_indices.o cctbx/miller/sym_equiv.o cctbx/sgtbx/bricks.o cctbx/sgtbx/change_of_basis_op.o cctbx/sgtbx/find_affine.o cctbx/sgtbx/group_codes.o cctbx/sgtbx/hall_in.o cctbx/sgtbx/lattice_tr.o cctbx/sgtbx/lattice_symmetry.o cctbx/sgtbx/miller.o cctbx/sgtbx/reciprocal_space_asu.o cctbx/sgtbx/reciprocal_space_ref_asu.o cctbx/sgtbx/rot_mx.o cctbx/sgtbx/rot_mx_info.o cctbx/sgtbx/row_echelon_solve.o cctbx/sgtbx/rt_mx.o cctbx/sgtbx/select_generators.o cctbx/sgtbx/seminvariant.o cctbx/sgtbx/site_symmetry.o cctbx/sgtbx/space_group.o cctbx/sgtbx/space_group_type.o cctbx/sgtbx/symbols.o cctbx/sgtbx/tensor_rank_2.o cctbx/sgtbx/tr_group.o cctbx/sgtbx/tr_vec.o cctbx/sgtbx/utils.o cctbx/sgtbx/wyckoff.o cctbx/sgtbx/reference_settings/hall_symbol_table.o cctbx/sgtbx/reference_settings/matrix_group_code_table.o cctbx/sgtbx/reference_settings/normalizer.o cctbx/sgtbx/reference_settings/wyckoff.o cctbx/uctbx/uctbx.o cctbx/uctbx/spoil_optimization.o cctbx/uctbx/crystal_orientation.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lm Create symlinks for: 'lib/libcctbx.so.0.0.1' 'lib/libcctbx.so.0'->'lib/libcctbx.so.0.0.1' 'lib/libcctbx.so'->'lib/libcctbx.so.0.0.1' g++ -o boost_adaptbx/graph/graph_structure_comparison_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/graph/graph_structure_comparison_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /usr/include/boost/smart_ptr/detail/deprecated_macros.hpp:8, from /usr/include/boost/smart_ptr/detail/sp_counted_base.hpp:20, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:22, from /usr/include/boost/smart_ptr/shared_ptr.hpp:17, from /usr/include/boost/shared_ptr.hpp:17, from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, from /usr/include/boost/python/converter/arg_to_python.hpp:15, from /usr/include/boost/python/call.hpp:15, from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object.hpp:9, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/graph/graph_type.hpp:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/graph/graph_ext.cpp:1: /usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/deprecated_macros.hpp:8, from /usr/include/boost/smart_ptr/detail/sp_counted_base.hpp:20, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:22, from /usr/include/boost/smart_ptr/shared_ptr.hpp:17, from /usr/include/boost/shared_ptr.hpp:17, from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, from /usr/include/boost/python/converter/arg_to_python.hpp:15, from /usr/include/boost/python/call.hpp:15, from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object.hpp:9, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/graph/graph_type.hpp:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/graph/clustering_algorithm_ext.cpp:1: /usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/deprecated_macros.hpp:8, from /usr/include/boost/smart_ptr/detail/sp_counted_base.hpp:20, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:22, from /usr/include/boost/smart_ptr/shared_ptr.hpp:17, from /usr/include/boost/shared_ptr.hpp:17, from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, from /usr/include/boost/python/converter/arg_to_python.hpp:15, from /usr/include/boost/python/call.hpp:15, from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object.hpp:9, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/graph/graph_type.hpp:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/graph/connected_component_algorithm_ext.cpp:1: /usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/deprecated_macros.hpp:8, from /usr/include/boost/smart_ptr/detail/sp_counted_base.hpp:20, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:22, from /usr/include/boost/smart_ptr/shared_ptr.hpp:17, from /usr/include/boost/shared_ptr.hpp:17, from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, from /usr/include/boost/python/converter/arg_to_python.hpp:15, from /usr/include/boost/python/call.hpp:15, from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object.hpp:9, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/graph/graph_type.hpp:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/graph/breadth_first_search_ext.cpp:1: /usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/deprecated_macros.hpp:8, from /usr/include/boost/smart_ptr/detail/sp_counted_base.hpp:20, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:22, from /usr/include/boost/smart_ptr/shared_ptr.hpp:17, from /usr/include/boost/shared_ptr.hpp:17, from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, from /usr/include/boost/python/converter/arg_to_python.hpp:15, from /usr/include/boost/python/call.hpp:15, from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object.hpp:9, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/graph/graph_type.hpp:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/graph/graph_structure_comparison_ext.cpp:1: /usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ g++ -o boost_adaptbx/graph/maximum_clique_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/graph/maximum_clique_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o boost_adaptbx/graph/metric_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/graph/metric_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o boost_adaptbx/graph/min_cut_max_flow_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/graph/min_cut_max_flow_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o boost_adaptbx/graph/utility_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/graph/utility_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /usr/include/boost/smart_ptr/detail/deprecated_macros.hpp:8, from /usr/include/boost/smart_ptr/detail/sp_counted_base.hpp:20, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:22, from /usr/include/boost/smart_ptr/shared_ptr.hpp:17, from /usr/include/boost/shared_ptr.hpp:17, from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, from /usr/include/boost/python/converter/arg_to_python.hpp:15, from /usr/include/boost/python/call.hpp:15, from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object.hpp:9, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/graph/graph_type.hpp:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/graph/metric_ext.cpp:1: /usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/deprecated_macros.hpp:8, from /usr/include/boost/smart_ptr/detail/sp_counted_base.hpp:20, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:22, from /usr/include/boost/smart_ptr/shared_ptr.hpp:17, from /usr/include/boost/shared_ptr.hpp:17, from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, from /usr/include/boost/python/converter/arg_to_python.hpp:15, from /usr/include/boost/python/call.hpp:15, from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object.hpp:9, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/graph/graph_type.hpp:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/graph/maximum_clique_ext.cpp:1: /usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/deprecated_macros.hpp:8, from /usr/include/boost/smart_ptr/detail/sp_counted_base.hpp:20, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:22, from /usr/include/boost/smart_ptr/shared_ptr.hpp:17, from /usr/include/boost/shared_ptr.hpp:17, from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, from /usr/include/boost/python/converter/arg_to_python.hpp:15, from /usr/include/boost/python/call.hpp:15, from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object.hpp:9, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/graph/graph_type.hpp:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/graph/min_cut_max_flow_ext.cpp:1: /usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ g++ -o lib/libcctbx_sgtbx_asu.so.0.0.1 -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread -shared -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -Wl,-soname=libcctbx_sgtbx_asu.so.0 cctbx/sgtbx/direct_space_asu/proto/cut.o cctbx/sgtbx/direct_space_asu/proto/reference_table.o cctbx/sgtbx/direct_space_asu/proto/direct_space_asu.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lm In file included from /usr/include/boost/smart_ptr/detail/deprecated_macros.hpp:8, from /usr/include/boost/smart_ptr/detail/sp_counted_base.hpp:20, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:22, from /usr/include/boost/smart_ptr/shared_ptr.hpp:17, from /usr/include/boost/shared_ptr.hpp:17, from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, from /usr/include/boost/python/converter/arg_to_python.hpp:15, from /usr/include/boost/python/call.hpp:15, from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object.hpp:9, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/graph/graph_type.hpp:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/graph/utility_ext.cpp:1: /usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ Create symlinks for: 'lib/libcctbx_sgtbx_asu.so.0.0.1' 'lib/libcctbx_sgtbx_asu.so.0'->'lib/libcctbx_sgtbx_asu.so.0.0.1' 'lib/libcctbx_sgtbx_asu.so'->'lib/libcctbx_sgtbx_asu.so.0.0.1' g++ -o lib/libasymmetric_map.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libasymmetric_map.so.0 cctbx/maptbx/asymmetric_map.o cctbx/maptbx/skeletons.o cctbx/maptbx/dijkstra.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -liotbx_xplor -lcctbx_sgtbx_asu -lcctbx -lomptbx -lm Create symlinks for: 'lib/libasymmetric_map.so.0.0.1' 'lib/libasymmetric_map.so.0'->'lib/libasymmetric_map.so.0.0.1' 'lib/libasymmetric_map.so'->'lib/libasymmetric_map.so.0.0.1' g++ -o bin/cctbx_blobs -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread cctbx/maptbx/blobs_cmd.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lasymmetric_map -liotbx_xplor -lcctbx_sgtbx_asu -lcctbx -lomptbx -lm g++ -o boost_adaptbx/hybrid_times_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/hybrid_times_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o boost_adaptbx/meta_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/meta_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o boost_adaptbx/optional_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/optional_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o boost_adaptbx/rational_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/rational_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o boost_adaptbx/std_pair_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/std_pair_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o boost_adaptbx/tests/boost_thread_test.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/usr/include/python3.14 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/tests/boost_thread_test.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o boost_adaptbx/tests/python_streambuf_test_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/tests/python_streambuf_test_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o boost_adaptbx/tests/tst_optional_copy.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/tests/tst_optional_copy.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o boost_adaptbx/tests/tst_optional_copy -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread boost_adaptbx/tests/tst_optional_copy.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread g++ -o boost_adaptbx/tuple_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/tuple_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cbflib_adaptbx/detectors/boost_python/cbflib_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DSWIG_PYTHON_STRICT_BYTE_CHAR -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include/hdf5/serial -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/base/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx/detectors/boost_python/cbflib_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cbflib_adaptbx/detectors/buffer_based_service.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include/hdf5/serial -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/base/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx/detectors/buffer_based_service.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cbflib_adaptbx/detectors/cbf_adaptor.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include/hdf5/serial -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/base/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx/detectors/cbf_adaptor.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cbflib_adaptbx/detectors/cbf_byte_offset_optimized.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include/hdf5/serial -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/base/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx/detectors/cbf_byte_offset_optimized.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cbflib_adaptbx/detectors/mar_adaptor.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include/hdf5/serial -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/base/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx/detectors/mar_adaptor.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cbflib_adaptbx/detectors/tst_memory.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DCBF_NO_REGEX -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/base/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx/detectors/tst_memory.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o ccp4io_adaptbx/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/ccp4io -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/ccp4io_adaptbx/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ gcc -o ccp4io_adaptbx/fortran_call_stubs.o -c -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DMSETS=32 -DMXTALS=32 -DMCOLUMNS=128 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/ccp4io -I. -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/ccp4io_adaptbx/fortran_call_stubs.c gcc -o ccp4io_adaptbx/printf_wrappers.o -c -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DMSETS=32 -DMXTALS=32 -DMCOLUMNS=128 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/ccp4io -I. -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/ccp4io_adaptbx/printf_wrappers.c g++ -o cctbx/adp_restraints/adp_restraints_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/adp_restraints/adp_restraints_bpl.cpp g++ -o cctbx/adp_restraints/adp_restraints_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/adp_restraints/adp_restraints_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/adp_restraints/adp_similarity_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/adp_restraints/adp_similarity_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/adp_restraints/aniso_restraints_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/adp_restraints/aniso_restraints_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/adp_restraints/fixed_u_eq_adp_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/adp_restraints/fixed_u_eq_adp_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/adp_restraints/isotropic_adp_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/adp_restraints/isotropic_adp_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/adp_restraints/rigid_bond_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/adp_restraints/rigid_bond_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/adp_restraints/rigu_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/adp_restraints/rigu_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/adptbx/boost_python/adptbx_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/adptbx/boost_python/adptbx_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/adptbx/boost_python/anharmonic_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/adptbx/boost_python/anharmonic_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/adptbx/boost_python/hirshfeld.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/adptbx/boost_python/hirshfeld.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/array_family/boost_python/flex_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/array_family/boost_python/flex_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/array_family/boost_python/flex_hendrickson_lattman.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/array_family/boost_python/flex_hendrickson_lattman.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/array_family/boost_python/flex_miller_index.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/array_family/boost_python/flex_miller_index.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/array_family/boost_python/flex_xray_scatterer.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/array_family/boost_python/flex_xray_scatterer.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/boost_python/emma_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/boost_python/emma_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/boost_python/french_wilson_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/boost_python/french_wilson_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/boost_python/orientation_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/boost_python/orientation_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/boost_python/statistics_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/boost_python/statistics_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/covariance/boost_python/covariance_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/covariance/boost_python/covariance_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/crystal/asu_clusters_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/crystal/asu_clusters_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/crystal/close_packing_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/crystal/close_packing_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/crystal/coordination_sequences_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/crystal/coordination_sequences_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/crystal/crystal_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/crystal/crystal_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/crystal/direct_space_asu_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/crystal/direct_space_asu_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/crystal/incremental_pairs_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/crystal/incremental_pairs_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/crystal/neighbors_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/crystal/neighbors_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/crystal/pair_tables_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/crystal/pair_tables_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/crystal/site_cluster_analysis_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/crystal/site_cluster_analysis_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/crystal/symmetry_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/crystal/symmetry_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/dmtbx/boost_python/dmtbx_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/dmtbx/boost_python/dmtbx_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/dmtbx/boost_python/triplet_generator.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/dmtbx/boost_python/triplet_generator.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/dmtbx/boost_python/triplet_phase_relation.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/dmtbx/boost_python/triplet_phase_relation.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/boost_python/attenuation_coefficient_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/eltbx/boost_python/attenuation_coefficient_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/boost_python/chemical_elements_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/eltbx/boost_python/chemical_elements_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/boost_python/covalent_radii_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/eltbx/boost_python/covalent_radii_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/boost_python/fp_fdp_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/eltbx/boost_python/fp_fdp_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/boost_python/henke_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/eltbx/boost_python/henke_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/boost_python/icsd_radii_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/eltbx/boost_python/icsd_radii_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/boost_python/neutron_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/eltbx/boost_python/neutron_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/boost_python/sasaki_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/eltbx/boost_python/sasaki_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/boost_python/tiny_pse_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/eltbx/boost_python/tiny_pse_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/boost_python/wavelengths_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/eltbx/boost_python/wavelengths_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/boost_python/xray_scattering_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/eltbx/boost_python/xray_scattering_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/examples/convert_ccp4_symop_lib.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -Icctbx/examples -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/examples /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/examples/convert_ccp4_symop_lib.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/examples/find_distances.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -Icctbx/examples -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/examples /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/examples/find_distances.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/examples/getting_started.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -Icctbx/examples -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/examples /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/examples/getting_started.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/examples/lattice_symmetry.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -Icctbx/examples -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/examples /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/examples/lattice_symmetry.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/examples/sym_equiv_sites.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -Icctbx/examples -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/examples /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/examples/sym_equiv_sites.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/examples/sys_abs_equiv_space_groups.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -Icctbx/examples -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/examples /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/examples/sys_abs_equiv_space_groups.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/geometry/boost_python/geometry_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry/boost_python/geometry_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/geometry_restraints/angle_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/angle_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/geometry_restraints/bond_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/bond_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/geometry_restraints/bond_similarity_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/bond_similarity_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scatterer.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/restraints.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/angle.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/angle_bpl.cpp:13: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here 203 | new tensor_rank_3_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ g++ -o cctbx/geometry_restraints/bond_sorted_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/bond_sorted_bpl.cpp /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here 214 | new tensor_rank_4_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /usr/include/boost/assert.hpp:64, from /usr/include/boost/optional/optional.hpp:25, from /usr/include/boost/optional.hpp:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref_reductions.h:8, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:31, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:12, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/angle_bpl.cpp:11: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = cctbx::geometry_restraints::angle_proxy; GetitemReturnValuePolicy = boost::python::return_internal_reference<>; std::string = std::__cxx11::basic_string]’ 130 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 131 | w_t, | ~~~~ 132 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/angle_bpl.cpp:75:65: required from here 75 | scitbx::af::boost_python::shared_wrapper::wrap( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 76 | "shared_angle_proxy") | ~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/wyckoff.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/sym_equiv_sites.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/crystal/direct_space_asu.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/asu_cache.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/bond.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/bond_misc.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/bond_bpl.cpp:14: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i, scitbx::af::trivial_accessor>&, const cctbx::geometry_restraints::bond_similarity_proxy&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/bond_similarity.h:84:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 84 | for(int i=0;i, scitbx::af::trivial_accessor>&, const cctbx::geometry_restraints::bond_similarity_proxy&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/bond_similarity.h:108:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 108 | for(int i=0;i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here 203 | new tensor_rank_3_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here 214 | new tensor_rank_4_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ g++ -o cctbx/geometry_restraints/chirality_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/chirality_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:6: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here 203 | new tensor_rank_3_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here 214 | new tensor_rank_4_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/assert.hpp:64, from /usr/include/boost/optional/optional.hpp:25, from /usr/include/boost/optional.hpp:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref_reductions.h:8, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:31, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:12, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/bond_similarity_bpl.cpp:9: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = cctbx::geometry_restraints::bond_similarity_proxy; GetitemReturnValuePolicy = boost::python::return_internal_reference<>; std::string = std::__cxx11::basic_string]’ 130 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 131 | w_t, | ~~~~ 132 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/bond_similarity_bpl.cpp:55:44: required from here 54 | scitbx::af::boost_python::shared_wrapper< | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | bond_similarity_proxy, rir>::wrap( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 56 | "shared_bond_similarity_proxy"); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared, 2> >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared, 2> >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = scitbx::af::tiny, 2>; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ 130 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 131 | w_t, | ~~~~ 132 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/bond_similarity_bpl.cpp:79:54: required from here 78 | scitbx::af::boost_python::shared_wrapper< | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 79 | af::tiny, 2>, rbv>::wrap( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 80 | "sites_array"); | ~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ In file included from /usr/include/boost/assert.hpp:64, from /usr/include/boost/optional/optional.hpp:25, from /usr/include/boost/optional.hpp:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref_reductions.h:8, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:31, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:12, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/bond_bpl.cpp:10: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = std::map; GetitemReturnValuePolicy = boost::python::return_internal_reference<>; std::string = std::__cxx11::basic_string]’ 130 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 131 | w_t, | ~~~~ 132 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/bond_bpl.cpp:129:23: required from here 129 | shared_w_t::wrap( | ~~~~~~~~~~~~~~~~^ 130 | "bond_params_table") | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = cctbx::geometry_restraints::bond_simple_proxy; GetitemReturnValuePolicy = boost::python::return_internal_reference<>; std::string = std::__cxx11::basic_string]’ 130 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 131 | w_t, | ~~~~ 132 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/bond_bpl.cpp:232:25: required from here 232 | shared_w_t::wrap( | ~~~~~~~~~~~~~~~~^ 233 | "shared_bond_simple_proxy") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = cctbx::geometry_restraints::bond_asu_proxy; GetitemReturnValuePolicy = boost::python::return_internal_reference<>; std::string = std::__cxx11::basic_string]’ 130 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 131 | w_t, | ~~~~ 132 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/bond_bpl.cpp:340:25: required from here 340 | shared_w_t::wrap( | ~~~~~~~~~~~~~~~~^ 341 | "shared_bond_asu_proxy") | ~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ g++ -o cctbx/geometry_restraints/dihedral_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/dihedral_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h: In constructor ‘scitbx::af::shared_plain::shared_plain(const size_type&) [with ElementType = scitbx::vec3]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:132:34: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/15/memory:71, from /usr/include/boost/config/no_tr1/memory.hpp:21, from /usr/include/boost/get_pointer.hpp:14, from /usr/include/boost/python/object/pointer_holder.hpp:11, from /usr/include/boost/python/to_python_indirect.hpp:10, from /usr/include/boost/python/converter/arg_to_python.hpp:10, from /usr/include/boost/python/call.hpp:15, from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object.hpp:9, from /usr/include/boost/python/tuple.hpp:10, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/shared_wrapper_pickle.hpp:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/angle_bpl.cpp:2: /usr/include/c++/15/bits/stl_uninitialized.h:526:5: note: by argument 3 of type ‘const scitbx::vec3&’ to ‘_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = scitbx::vec3*; _Size = long unsigned int; _Tp = scitbx::vec3]’ declared here 526 | uninitialized_fill_n(_ForwardIterator __first, _Size __n, const _Tp& __x) | ^~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:132:48: note: ‘’ declared here 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); | ^~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/wyckoff.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/sym_equiv_sites.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/crystal/direct_space_asu.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/asu_cache.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/bond.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/bond_sorted.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/bond_sorted_bpl.cpp:9: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here 203 | new tensor_rank_3_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here 214 | new tensor_rank_4_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/crystal/direct_space_asu.h: In instantiation of ‘int cctbx::crystal::direct_space_asu::asu_mappings::find_i_sym(unsigned int, const cctbx::sgtbx::rt_mx&) const [with FloatType = double; IntShiftType = int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/crystal/pair_tables.h:643:46: required from ‘bool cctbx::crystal::pair_asu_table::process_pair(unsigned int, unsigned int, const cctbx::sgtbx::rt_mx&) [with FloatType = double; IntShiftType = int]’ 643 | int j_sym = asu_mappings_->find_i_sym(j_seq, rt_mx_j); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/crystal/pair_tables.h:543:35: required from ‘cctbx::crystal::pair_asu_table& cctbx::crystal::pair_asu_table::add_pair(const scitbx::af::tiny&) [with FloatType = double; IntShiftType = int]’ 543 | bool is_new = process_pair(i_seqs[0], i_seqs[1], rt_mx_ji); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/bond_sorted.h:16:30: required from here 16 | pair_asu_table.add_pair(bond_simple_proxies[i].i_seqs); | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/crystal/direct_space_asu.h:859:33: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector, std::allocator > >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 859 | for(int i_sym=0; i_sym, std::allocator > >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 869 | for(int i_sym=0; i_sym::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here 203 | new tensor_rank_3_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here 214 | new tensor_rank_4_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/assert.hpp:64, from /usr/include/boost/optional/optional.hpp:25, from /usr/include/boost/optional.hpp:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref_reductions.h:8, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:31, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:12, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/chirality_bpl.cpp:11: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = cctbx::geometry_restraints::chirality_proxy; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ 130 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 131 | w_t, | ~~~~ 132 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/chirality_bpl.cpp:75:60: required from here 75 | scitbx::af::boost_python::shared_wrapper::wrap( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 76 | "shared_chirality_proxy") | ~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scatterer.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/restraints.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/dihedral.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/dihedral_bpl.cpp:12: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i cctbx::geometry_restraints::shared_proxy_remove(const scitbx::af::const_ref&, const scitbx::af::const_ref&) [with ProxyType = dihedral_proxy]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/dihedral_bpl.cpp:110:17: required from here 110 | shared_proxy_remove, ( | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/proxy_select.h:187:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 187 | if (match_ctr != i_seqs.size()) { | ~~~~~~~~~~^~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:6: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here 203 | new tensor_rank_3_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here 214 | new tensor_rank_4_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/assert.hpp:64, from /usr/include/boost/optional/optional.hpp:25, from /usr/include/boost/optional.hpp:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref_reductions.h:8, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:31, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:12, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/dihedral_bpl.cpp:11: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = cctbx::geometry_restraints::dihedral_proxy; GetitemReturnValuePolicy = boost::python::return_internal_reference<>; std::string = std::__cxx11::basic_string]’ 130 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 131 | w_t, | ~~~~ 132 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/dihedral_bpl.cpp:84:65: required from here 84 | scitbx::af::boost_python::shared_wrapper::wrap( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 85 | "shared_dihedral_proxy") | ~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ g++ -o cctbx/geometry_restraints/geometry_restraints_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/geometry_restraints_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/geometry_restraints/motif_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/motif_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/geometry_restraints/nonbonded_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/nonbonded_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/geometry_restraints/nonbonded_sorted_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/nonbonded_sorted_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/geometry_restraints/parallelity_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/parallelity_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/wyckoff.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/sym_equiv_sites.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/crystal/direct_space_asu.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/asu_cache.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/nonbonded.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/nonbonded_bpl.cpp:11: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here 203 | new tensor_rank_3_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here 214 | new tensor_rank_4_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/wyckoff.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/sym_equiv_sites.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/crystal/direct_space_asu.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/asu_cache.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/nonbonded.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/nonbonded_sorted.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/nonbonded_sorted_bpl.cpp:8: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = cctbx::geometry_restraints::nonbonded_simple_proxy; GetitemReturnValuePolicy = boost::python::return_internal_reference<>; std::string = std::__cxx11::basic_string]’ 130 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 131 | w_t, | ~~~~ 132 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/nonbonded_bpl.cpp:92:25: required from here 92 | shared_w_t::wrap("shared_nonbonded_simple_proxy") | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = cctbx::geometry_restraints::nonbonded_asu_proxy; GetitemReturnValuePolicy = boost::python::return_internal_reference<>; std::string = std::__cxx11::basic_string]’ 130 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 131 | w_t, | ~~~~ 132 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/nonbonded_bpl.cpp:125:25: required from here 125 | shared_w_t::wrap( | ~~~~~~~~~~~~~~~~^ 126 | "shared_nonbonded_asu_proxy") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:6: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here 203 | new tensor_rank_3_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here 214 | new tensor_rank_4_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/crystal/neighbors_fast.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/crystal/pair_tables.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/nonbonded_sorted.h:5: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/cubicles.h: In instantiation of ‘scitbx::vec3 scitbx::cubicles::i_cubicle(const SiteType&) const [with SiteType = cctbx::cartesian; CubicleContentType = std::vector; FloatType = double]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/crystal/neighbors_fast.h:77:34: required from ‘cctbx::crystal::neighbors::fast_pair_generator::fast_pair_generator(const boost::shared_ptr >&, const FloatType&, bool, const FloatType&, const FloatType&) [with FloatType = double; IntShiftType = int]’ 77 | cubicles_.i_cubicle(mappings[mi.i_seq][mi.i_sym].mapped_site())); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/nonbonded_sorted.h:80:27: required from here 80 | min_cubicle_edge); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/cubicles.h:176:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const unsigned int’ [-Wsign-compare] 176 | else if (j >= ref.accessor()[i]) j = ref.accessor()[i]-1; | ~~^~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/assert.hpp:64, from /usr/include/boost/optional/optional.hpp:25, from /usr/include/boost/optional.hpp:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref_reductions.h:8, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:31, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:12, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/parallelity_bpl.cpp:11: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = cctbx::geometry_restraints::parallelity_proxy; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ 130 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 131 | w_t, | ~~~~ 132 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/parallelity_bpl.cpp:82:60: required from here 82 | scitbx::af::boost_python::shared_wrapper::wrap( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 83 | "shared_parallelity_proxy") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ g++ -o cctbx/geometry_restraints/planarity_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/planarity_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /usr/include/boost/assert.hpp:64, from /usr/include/boost/optional/optional.hpp:25, from /usr/include/boost/optional.hpp:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref_reductions.h:8, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:31, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:12, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/planarity_bpl.cpp:11: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = cctbx::geometry_restraints::planarity_proxy; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ 130 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 131 | w_t, | ~~~~ 132 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/planarity_bpl.cpp:62:23: required from here 62 | shared_w_t::wrap( | ~~~~~~~~~~~~~~~~^ 63 | "shared_planarity_proxy") | ~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ g++ -o cctbx/maptbx/asymmetric_map_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/maptbx/asymmetric_map_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/maptbx/bcr/bcr_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/maptbx/bcr/bcr_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/maptbx/boost_python/coordinate_transformers.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/maptbx/boost_python/coordinate_transformers.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/maptbx/boost_python/grid_indices_around_sites.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/maptbx/boost_python/grid_indices_around_sites.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/maptbx/boost_python/grid_tags.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/maptbx/boost_python/grid_tags.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/maptbx/boost_python/gridding.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/maptbx/boost_python/gridding.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/maptbx/boost_python/maptbx_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/maptbx/boost_python/maptbx_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/maptbx/boost_python/misc.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/maptbx/boost_python/misc.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/maptbx/boost_python/peak_search.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/maptbx/boost_python/peak_search.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/maptbx/boost_python/pymol_interface.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/maptbx/boost_python/pymol_interface.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/maptbx/boost_python/statistics.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/maptbx/boost_python/statistics.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/maptbx/boost_python/structure_factors.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/maptbx/boost_python/structure_factors.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/masks/boost_python/masks_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/masks/boost_python/masks_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/math/boost_python/math_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/math/boost_python/math_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/math/time_trigonometry.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/math/time_trigonometry.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/merging/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/merging/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/math/time_trigonometry -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread cctbx/math/time_trigonometry.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lboost_thread -lboost_timer -lm g++ -o cctbx/miller/boost_python/amplitude_normalisation.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/boost_python/amplitude_normalisation.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/boost_python/asu.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/boost_python/asu.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/boost_python/bins.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/boost_python/bins.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/boost_python/change_basis.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/boost_python/change_basis.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/boost_python/expand_to_p1.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/boost_python/expand_to_p1.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/boost_python/f_calc_map.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/boost_python/f_calc_map.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/boost_python/index_generator.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/boost_python/index_generator.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/boost_python/index_span.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/boost_python/index_span.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/boost_python/lookup_utils.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/boost_python/lookup_utils.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/boost_python/match_bijvoet_mates.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/boost_python/match_bijvoet_mates.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/boost_python/match_indices.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/boost_python/match_indices.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/boost_python/match_multi_indices.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/boost_python/match_multi_indices.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/boost_python/merge_equivalents.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/boost_python/merge_equivalents.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/boost_python/miller_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/boost_python/miller_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/boost_python/phase_integrator.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/boost_python/phase_integrator.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/boost_python/phase_transfer.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/boost_python/phase_transfer.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/boost_python/randomize_amplitude_and_phase.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/boost_python/randomize_amplitude_and_phase.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/boost_python/slices.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/boost_python/slices.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/boost_python/sym_equiv.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/boost_python/sym_equiv.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/multipolar/aspherical_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/multipolar/aspherical_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/boost_python/brick.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/boost_python/brick.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/boost_python/change_of_basis.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/boost_python/change_of_basis.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/boost_python/find_affine.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/boost_python/find_affine.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/boost_python/lattice_symmetry.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/boost_python/lattice_symmetry.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/boost_python/phase_info.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/boost_python/phase_info.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/boost_python/reciprocal_space_asu.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/boost_python/reciprocal_space_asu.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/boost_python/rot_mx.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/boost_python/rot_mx.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/boost_python/rt_mx.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/boost_python/rt_mx.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/boost_python/search_symmetry.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/boost_python/search_symmetry.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/boost_python/select_generators.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/boost_python/select_generators.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/boost_python/seminvariant.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/boost_python/seminvariant.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/boost_python/sgtbx_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/boost_python/sgtbx_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/boost_python/site_symmetry.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/boost_python/site_symmetry.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/boost_python/space_group.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/boost_python/space_group.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/boost_python/space_group_type.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/boost_python/space_group_type.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/boost_python/sym_equiv_sites.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/boost_python/sym_equiv_sites.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/boost_python/symbols.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/boost_python/symbols.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/boost_python/tensor_rank_2.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/boost_python/tensor_rank_2.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/boost_python/tensors.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/boost_python/tensors.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/boost_python/tr_vec.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/boost_python/tr_vec.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/boost_python/wyckoff.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/boost_python/wyckoff.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/direct_space_asu/proto/asu_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/direct_space_asu/proto/asu_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/direct_space_asu/proto/tst_asu.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/direct_space_asu/proto/tst_asu.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/symmetry_search/boost_python/symmetry_search_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/symmetry_search/boost_python/symmetry_search_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/translation_search/boost_python/fast_nv1995.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/translation_search/boost_python/fast_nv1995.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/direct_space_asu/proto/tst_asu -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread cctbx/sgtbx/direct_space_asu/proto/tst_asu.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx_sgtbx_asu -lcctbx -lm g++ -o cctbx/translation_search/boost_python/fast_terms.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/translation_search/boost_python/fast_terms.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/translation_search/boost_python/symmetry_flags.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/translation_search/boost_python/symmetry_flags.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/translation_search/boost_python/translation_search_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/translation_search/boost_python/translation_search_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/uctbx/boost_python/fast_minimum_reduction.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/uctbx/boost_python/fast_minimum_reduction.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/uctbx/boost_python/niggli_reduction.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/uctbx/boost_python/niggli_reduction.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/uctbx/boost_python/uctbx_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/uctbx/boost_python/uctbx_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/uctbx/determine_unit_cell/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_SINGLEFILE_NCDIST -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/uctbx/determine_unit_cell/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/xray/boost_python/conversions.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/conversions.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/xray/boost_python/curvatures_simple.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/curvatures_simple.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/xray/boost_python/each_hkl_gradients_direct.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/each_hkl_gradients_direct.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/xray/boost_python/extinction.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/extinction.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scatterer.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scattering_type_registry.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/curvatures_simple.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/curvatures_simple.cpp:3: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here 203 | new tensor_rank_3_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here 214 | new tensor_rank_4_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scatterer.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scattering_type_registry.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/gradients_direct.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/each_hkl_gradients_direct.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/each_hkl_gradients_direct.cpp:3: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i::small_plain(const OtherElementType*, const OtherElementType*) [with OtherElementType = float; ElementType = double; long unsigned int N = 10]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small.h:50:33: required from ‘scitbx::af::small::small(const OtherElementType*, const OtherElementType*) [with OtherElementType = float; ElementType = double; long unsigned int N = 10]’ 50 | : base_class(first, last) | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/eltbx/xray_scattering.h:155:11: required from ‘cctbx::eltbx::xray_scattering::gaussian cctbx::eltbx::xray_scattering::base::fetch() const [with long unsigned int N = 4]’ 155 | small_t(entry_->a, entry_->a+N), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scattering_type_registry.h:192:40: required from here 191 | ugs[ui] = eltbx::xray_scattering::it1992( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 192 | pair->first, exact).fetch(); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small_plain.h:69:15: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘long int’ [-Wsign-compare] 69 | if (N < last - first) throw_range_error(); | ~~^~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:6: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here 203 | new tensor_rank_3_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here 214 | new tensor_rank_4_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/uctbx.h:11, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/change_of_basis_op.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tr_group.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/space_group.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_constraints.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:4: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small_plain.h: In instantiation of ‘scitbx::af::small_plain::small_plain(const OtherElementType*, const OtherElementType*) [with OtherElementType = float; ElementType = double; long unsigned int N = 10]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small.h:50:33: required from ‘scitbx::af::small::small(const OtherElementType*, const OtherElementType*) [with OtherElementType = float; ElementType = double; long unsigned int N = 10]’ 50 | : base_class(first, last) | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/eltbx/xray_scattering.h:155:11: required from ‘cctbx::eltbx::xray_scattering::gaussian cctbx::eltbx::xray_scattering::base::fetch() const [with long unsigned int N = 4]’ 155 | small_t(entry_->a, entry_->a+N), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scattering_type_registry.h:192:40: required from here 191 | ugs[ui] = eltbx::xray_scattering::it1992( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 192 | pair->first, exact).fetch(); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small_plain.h:69:15: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘long int’ [-Wsign-compare] 69 | if (N < last - first) throw_range_error(); | ~~^~~~~~~~~~~~~~ g++ -o cctbx/xray/boost_python/fast_gradients.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/fast_gradients.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/match_indices.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/lookup_utils.h:11, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/f_model.h:11, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/f_model_bpl.cpp:3: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/match.h:16:34: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 16 | struct additive_sigma : std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/15/string:51, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/istream:42, from /usr/include/c++/15/sstream:42, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:31, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/f_model.h:4: /usr/include/c++/15/bits/stl_function.h:134:12: note: declared here 134 | struct binary_function | ^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/match.h:18:20: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 18 | typedef std::binary_function base_type; | ^~~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:134:12: note: declared here 134 | struct binary_function | ^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/match.h:31:27: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 31 | struct average : std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:134:12: note: declared here 134 | struct binary_function | ^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/match.h:33:20: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 33 | typedef std::binary_function base_type; | ^~~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:134:12: note: declared here 134 | struct binary_function | ^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/f_model.h: In instantiation of ‘cctbx::xray::f_model_core_data::f_model_core_data cctbx::xray::f_model_core_data::f_model_core_data::select(const scitbx::af::const_ref&) const [with FloatType = double]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/f_model_bpl.cpp:174:32: required from here 174 | .def("select", &w_t::select) | ^~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/f_model.h:732:38: warning: comparison of integer expressions of different signedness: ‘const int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 732 | CCTBX_ASSERT( iselection[ii]::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here 203 | new tensor_rank_3_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here 214 | new tensor_rank_4_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/uctbx.h:11, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/change_of_basis_op.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tr_group.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/space_group.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_constraints.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:4: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small_plain.h: In instantiation of ‘scitbx::af::small_plain::small_plain(const OtherElementType*, const OtherElementType*) [with OtherElementType = float; ElementType = double; long unsigned int N = 10]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small.h:50:33: required from ‘scitbx::af::small::small(const OtherElementType*, const OtherElementType*) [with OtherElementType = float; ElementType = double; long unsigned int N = 10]’ 50 | : base_class(first, last) | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/eltbx/xray_scattering.h:155:11: required from ‘cctbx::eltbx::xray_scattering::gaussian cctbx::eltbx::xray_scattering::base::fetch() const [with long unsigned int N = 4]’ 155 | small_t(entry_->a, entry_->a+N), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scattering_type_registry.h:192:40: required from here 191 | ugs[ui] = eltbx::xray_scattering::it1992( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 192 | pair->first, exact).fetch(); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small_plain.h:69:15: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘long int’ [-Wsign-compare] 69 | if (N < last - first) throw_range_error(); | ~~^~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scatterer.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scattering_type_registry.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/gradients_direct.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/gradients_direct.cpp:3: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here 203 | new tensor_rank_3_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here 214 | new tensor_rank_4_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/uctbx.h:11, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/change_of_basis_op.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tr_group.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/space_group.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_constraints.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:4: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small_plain.h: In instantiation of ‘scitbx::af::small_plain::small_plain(const OtherElementType*, const OtherElementType*) [with OtherElementType = float; ElementType = double; long unsigned int N = 10]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small.h:50:33: required from ‘scitbx::af::small::small(const OtherElementType*, const OtherElementType*) [with OtherElementType = float; ElementType = double; long unsigned int N = 10]’ 50 | : base_class(first, last) | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/eltbx/xray_scattering.h:155:11: required from ‘cctbx::eltbx::xray_scattering::gaussian cctbx::eltbx::xray_scattering::base::fetch() const [with long unsigned int N = 4]’ 155 | small_t(entry_->a, entry_->a+N), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scattering_type_registry.h:192:40: required from here 191 | ugs[ui] = eltbx::xray_scattering::it1992( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 192 | pair->first, exact).fetch(); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small_plain.h:69:15: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘long int’ [-Wsign-compare] 69 | if (N < last - first) throw_range_error(); | ~~^~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/match_indices.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/lookup_utils.h:11, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/grouped_data.h:14, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/grouped_data.cpp:3: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/match.h:16:34: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 16 | struct additive_sigma : std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/15/string:51, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/istream:42, from /usr/include/c++/15/sstream:42, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:31, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/grouped_data.h:4: /usr/include/c++/15/bits/stl_function.h:134:12: note: declared here 134 | struct binary_function | ^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/match.h:18:20: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 18 | typedef std::binary_function base_type; | ^~~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:134:12: note: declared here 134 | struct binary_function | ^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/match.h:31:27: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 31 | struct average : std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:134:12: note: declared here 134 | struct binary_function | ^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/match.h:33:20: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 33 | typedef std::binary_function base_type; | ^~~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:134:12: note: declared here 134 | struct binary_function | ^~~~~~~~~~~~~~~ g++ -o cctbx/xray/boost_python/minimization.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/minimization.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/grouped_data.h: In instantiation of ‘FloatType cctbx::xray::grouped_data::merger::bic() [with FloatType = double]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/grouped_data.cpp:68:29: required from here 68 | .def("bic", &w_t::bic) | ^~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/grouped_data.h:257:30: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 257 | for (long int ii=0;ii::r_abs() [with FloatType = double]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/grouped_data.cpp:69:31: required from here 69 | .def("r_abs", &w_t::r_abs) | ^~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/grouped_data.h:271:30: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 271 | for (long int ii=0;ii cctbx::xray::grouped_data::merger::combine_obs(long int) [with FloatType = double]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/grouped_data.h:258:24: required from ‘FloatType cctbx::xray::grouped_data::merger::bic() [with FloatType = double]’ 258 | tmp_result = combine_obs( ii ); | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/grouped_data.cpp:68:29: required from here 68 | .def("bic", &w_t::bic) | ^~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/grouped_data.h:213:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 213 | for (int ii=1;ii::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 231 | for (int ii=1;ii::unmerged_data(scitbx::af::const_ref >, scitbx::af::const_ref >, const cctbx::sgtbx::space_group&, const bool&) [with FloatType = double]’: /usr/include/boost/python/object/value_holder.hpp:131:11: required from ‘boost::python::objects::value_holder::value_holder(PyObject*, A0, A1, A2, A3) [with A0 = boost::python::objects::reference_to_value >&>; A1 = boost::python::objects::reference_to_value >&>; A2 = boost::python::objects::reference_to_value; A3 = boost::python::objects::reference_to_value; Value = cctbx::xray::grouped_data::unmerged_data; PyObject = _object]’ 131 | PyObject* self BOOST_PP_COMMA_IF(N) BOOST_PP_ENUM_BINARY_PARAMS_Z(1, N, A, a)) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 132 | : m_held( | ~~~~~~~~~ 133 | BOOST_PP_REPEAT_1ST(N, BOOST_PYTHON_UNFORWARD_LOCAL, nil) | ~ /usr/include/boost/python/object/make_holder.hpp:95:18: required from ‘static void boost::python::objects::make_holder<4>::apply::execute(PyObject*, t0, t1, t2, t3) [with Holder = boost::python::objects::value_holder >; ArgList = boost::mpl::vector4 >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&>; PyObject = _object; t0 = const scitbx::af::const_ref >&; t1 = const scitbx::af::const_ref >&; t2 = const cctbx::sgtbx::space_group&; t3 = const bool&]’ 95 | try { | ~^ 96 | (new (memory) Holder( | ~~~~~~~~~~~~~~~~~~~~~ /usr/include/boost/python/detail/make_keyword_range_fn.hpp:63:47: required from ‘boost::python::api::object boost::python::detail::make_keyword_range_constructor(const CallPolicies&, const keyword_range&, Holder*, ArgList*, Arity*) [with ArgList = boost::mpl::vector4 >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&>; Arity = boost::mpl::size >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&> >; Holder = boost::python::objects::value_holder >; CallPolicies = boost::python::default_call_policies; keyword_range = std::pair]’ 63 | return detail::make_keyword_range_function( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 64 | objects::make_holder | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 65 | ::template apply::execute | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 66 | , policies | ~~~~~~~~~~ 67 | , kw); | ~~~~~ /usr/include/boost/python/init.hpp:310:66: required from ‘void boost::python::detail::def_init_aux(ClassT&, const Signature&, NArgs, const CallPoliciesT&, const char*, const keyword_range&) [with ClassT = boost::python::class_ >; CallPoliciesT = boost::python::default_call_policies; Signature = boost::mpl::vector4 >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&>; NArgs = boost::mpl::size >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&> >; keyword_range = std::pair]’ 310 | , detail::make_keyword_range_constructor( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 311 | policies | ~~~~~~~~ 312 | , keywords_ | ~~~~~~~~~~~ 313 | , (typename ClassT::metadata::holder*)0 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 314 | ) | ~ /usr/include/boost/python/init.hpp:377:31: required from ‘static void boost::python::detail::define_class_init_helper<0>::apply(ClassT&, const CallPoliciesT&, const Signature&, NArgs, const char*, const boost::python::detail::keyword_range&) [with ClassT = boost::python::class_ >; CallPoliciesT = boost::python::default_call_policies; Signature = boost::mpl::vector4 >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&>; NArgs = boost::mpl::size >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&> >; boost::python::detail::keyword_range = std::pair]’ 377 | detail::def_init_aux(cl, args, NArgs(), policies, doc, keywords); | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/boost/python/init.hpp:149:67: required from ‘void boost::python::init_base::visit(classT&) const [with classT = boost::python::class_ >; DerivedT = boost::python::init >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&>]’ 149 | detail::define_class_init_helper::apply( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 150 | cl | ~~ 151 | , derived().call_policies() | ~~~~~~~~~~~~~~~~~~~~~~~~~~~ 152 | , signature() | ~~~~~~~~~~~~~ 153 | , n_arguments() | ~~~~~~~~~~~~~~~ 154 | , derived().doc_string() | ~~~~~~~~~~~~~~~~~~~~~~~~ 155 | , derived().keywords()); | ~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/boost/python/def_visitor.hpp:31:34: required from ‘static void boost::python::def_visitor_access::visit(const V&, classT&) [with V = boost::python::def_visitor >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&> >; classT = boost::python::class_ >]’ 31 | v.derived_visitor().visit(c); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /usr/include/boost/python/def_visitor.hpp:67:34: required from ‘void boost::python::def_visitor::visit(classT&) const [with classT = boost::python::class_ >; DerivedVisitor = boost::python::init >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&>]’ 67 | def_visitor_access::visit(*this, c); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /usr/include/boost/python/class.hpp:221:22: required from ‘boost::python::class_::self& boost::python::class_::def(const boost::python::def_visitor&) [with Derived = boost::python::init >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&>; W = cctbx::xray::grouped_data::unmerged_data; X1 = boost::python::detail::not_specified; X2 = boost::python::detail::not_specified; X3 = boost::python::detail::not_specified; self = boost::python::class_ >]’ 221 | visitor.visit(*this); | ~~~~~~~~~~~~~^~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/grouped_data.cpp:27:15: required from here 26 | class_("unmerged_data", no_init) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 27 | .def(init< scitbx::af::const_ref< cctbx::miller::index<> > const&, | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 28 | scitbx::af::const_ref< cctbx::miller::index<> > const&, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 29 | sgtbx::space_group const&, | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 30 | bool const& | ~~~~~~~~~~~ 31 | > | ~ 32 | (( arg("hkl_obs"), | ~~~~~~~~~~~~~~~~~~ 33 | arg("asu_hkl"), | ~~~~~~~~~~~~~~~ 34 | arg("space_group"), | ~~~~~~~~~~~~~~~~~~~ 35 | arg("anomalous_flag") ))) | ~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/grouped_data.h:54:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 54 | for (int ii=0;ii >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 61 | for (int ii=0; ii >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 67 | CCTBX_ASSERT( tmp_index < asu_hkl.size() ); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/grouped_data.h:67:11: note: in expansion of macro ‘CCTBX_ASSERT’ 67 | CCTBX_ASSERT( tmp_index < asu_hkl.size() ); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/grouped_data.h: In instantiation of ‘cctbx::xray::grouped_data::merger::merger(scitbx::af::const_ref >, scitbx::af::const_ref, scitbx::af::const_ref, const cctbx::sgtbx::space_group&, const bool&, const cctbx::uctbx::unit_cell&) [with FloatType = double]’: /usr/include/boost/python/object/value_holder.hpp:131:11: required from ‘boost::python::objects::value_holder::value_holder(PyObject*, A0, A1, A2, A3, A4, A5) [with A0 = boost::python::objects::reference_to_value >&>; A1 = boost::python::objects::reference_to_value&>; A2 = boost::python::objects::reference_to_value&>; A3 = boost::python::objects::reference_to_value; A4 = boost::python::objects::reference_to_value; A5 = boost::python::objects::reference_to_value; Value = cctbx::xray::grouped_data::merger; PyObject = _object]’ 131 | PyObject* self BOOST_PP_COMMA_IF(N) BOOST_PP_ENUM_BINARY_PARAMS_Z(1, N, A, a)) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 132 | : m_held( | ~~~~~~~~~ 133 | BOOST_PP_REPEAT_1ST(N, BOOST_PYTHON_UNFORWARD_LOCAL, nil) | ~ /usr/include/boost/python/object/make_holder.hpp:95:18: required from ‘static void boost::python::objects::make_holder<6>::apply::execute(PyObject*, t0, t1, t2, t3, t4, t5) [with Holder = boost::python::objects::value_holder >; ArgList = boost::mpl::vector6 >&, const scitbx::af::const_ref&, const scitbx::af::const_ref&, const cctbx::sgtbx::space_group&, const bool&, const cctbx::uctbx::unit_cell&>; PyObject = _object; t0 = const scitbx::af::const_ref >&; t1 = const scitbx::af::const_ref&; t2 = const scitbx::af::const_ref&; t3 = const cctbx::sgtbx::space_group&; t4 = const bool&; t5 = const cctbx::uctbx::unit_cell&]’ 95 | try { | ~^ 96 | (new (memory) Holder( | ~~~~~~~~~~~~~~~~~~~~~ /usr/include/boost/python/detail/make_keyword_range_fn.hpp:63:47: required from ‘boost::python::api::object boost::python::detail::make_keyword_range_constructor(const CallPolicies&, const keyword_range&, Holder*, ArgList*, Arity*) [with ArgList = boost::mpl::vector6 >&, const scitbx::af::const_ref&, const scitbx::af::const_ref&, const cctbx::sgtbx::space_group&, const bool&, const cctbx::uctbx::unit_cell&>; Arity = boost::mpl::size >&, const scitbx::af::const_ref&, const scitbx::af::const_ref&, const cctbx::sgtbx::space_group&, const bool&, const cctbx::uctbx::unit_cell&> >; Holder = boost::python::objects::value_holder >; CallPolicies = boost::python::default_call_policies; keyword_range = std::pair]’ 63 | return detail::make_keyword_range_function( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 64 | objects::make_holder | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 65 | ::template apply::execute | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 66 | , policies | ~~~~~~~~~~ 67 | , kw); | ~~~~~ /usr/include/boost/python/init.hpp:310:66: required from ‘void boost::python::detail::def_init_aux(ClassT&, const Signature&, NArgs, const CallPoliciesT&, const char*, const keyword_range&) [with ClassT = boost::python::class_ >; CallPoliciesT = boost::python::default_call_policies; Signature = boost::mpl::vector6 >&, const scitbx::af::const_ref&, const scitbx::af::const_ref&, const cctbx::sgtbx::space_group&, const bool&, const cctbx::uctbx::unit_cell&>; NArgs = boost::mpl::size >&, const scitbx::af::const_ref&, const scitbx::af::const_ref&, const cctbx::sgtbx::space_group&, const bool&, const cctbx::uctbx::unit_cell&> >; keyword_range = std::pair]’ 310 | , detail::make_keyword_range_constructor( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 311 | policies | ~~~~~~~~ 312 | , keywords_ | ~~~~~~~~~~~ 313 | , (typename ClassT::metadata::holder*)0 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 314 | ) | ~ /usr/include/boost/python/init.hpp:377:31: required from ‘static void boost::python::detail::define_class_init_helper<0>::apply(ClassT&, const CallPoliciesT&, const Signature&, NArgs, const char*, const boost::python::detail::keyword_range&) [with ClassT = boost::python::class_ >; CallPoliciesT = boost::python::default_call_policies; Signature = boost::mpl::vector6 >&, const scitbx::af::const_ref&, const scitbx::af::const_ref&, const cctbx::sgtbx::space_group&, const bool&, const cctbx::uctbx::unit_cell&>; NArgs = boost::mpl::size >&, const scitbx::af::const_ref&, const scitbx::af::const_ref&, const cctbx::sgtbx::space_group&, const bool&, const cctbx::uctbx::unit_cell&> >; boost::python::detail::keyword_range = std::pair]’ 377 | detail::def_init_aux(cl, args, NArgs(), policies, doc, keywords); | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/boost/python/init.hpp:149:67: required from ‘void boost::python::init_base::visit(classT&) const [with classT = boost::python::class_ >; DerivedT = boost::python::init >&, const scitbx::af::const_ref&, const scitbx::af::const_ref&, const cctbx::sgtbx::space_group&, const bool&, const cctbx::uctbx::unit_cell&>]’ 149 | detail::define_class_init_helper::apply( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 150 | cl | ~~ 151 | , derived().call_policies() | ~~~~~~~~~~~~~~~~~~~~~~~~~~~ 152 | , signature() | ~~~~~~~~~~~~~ 153 | , n_arguments() | ~~~~~~~~~~~~~~~ 154 | , derived().doc_string() | ~~~~~~~~~~~~~~~~~~~~~~~~ 155 | , derived().keywords()); | ~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/boost/python/def_visitor.hpp:31:34: required from ‘static void boost::python::def_visitor_access::visit(const V&, classT&) [with V = boost::python::def_visitor >&, const scitbx::af::const_ref&, const scitbx::af::const_ref&, const cctbx::sgtbx::space_group&, const bool&, const cctbx::uctbx::unit_cell&> >; classT = boost::python::class_ >]’ 31 | v.derived_visitor().visit(c); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /usr/include/boost/python/def_visitor.hpp:67:34: required from ‘void boost::python::def_visitor::visit(classT&) const [with classT = boost::python::class_ >; DerivedVisitor = boost::python::init >&, const scitbx::af::const_ref&, const scitbx::af::const_ref&, const cctbx::sgtbx::space_group&, const bool&, const cctbx::uctbx::unit_cell&>]’ 67 | def_visitor_access::visit(*this, c); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /usr/include/boost/python/class.hpp:221:22: required from ‘boost::python::class_::self& boost::python::class_::def(const boost::python::def_visitor&) [with Derived = boost::python::init >&, const scitbx::af::const_ref&, const scitbx::af::const_ref&, const cctbx::sgtbx::space_group&, const bool&, const cctbx::uctbx::unit_cell&>; W = cctbx::xray::grouped_data::merger; X1 = boost::python::detail::not_specified; X2 = boost::python::detail::not_specified; X3 = boost::python::detail::not_specified; self = boost::python::class_ >]’ 221 | visitor.visit(*this); | ~~~~~~~~~~~~~^~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/grouped_data.cpp:54:15: required from here 53 | class_("merger", no_init) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 54 | .def(init< scitbx::af::const_ref< cctbx::miller::index<> > const&, | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | scitbx::af::const_ref< double > const&, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | scitbx::af::const_ref< double > const&, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 57 | sgtbx::space_group const&, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 58 | bool const&, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 59 | cctbx::uctbx::unit_cell const& | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 60 | > | ~ 61 | (( arg("hkl_obs"), | ~~~~~~~~~~~~~~~~~~ 62 | arg("i_obs"), | ~~~~~~~~~~~~~ 63 | arg("s_obs"), | ~~~~~~~~~~~~~ 64 | arg("space_group"), | ~~~~~~~~~~~~~~~~~~~ 65 | arg("anomalous_flag"), | ~~~~~~~~~~~~~~~~~~~~~~ 66 | arg("unit_cell") | ~~~~~~~~~~~~~~~~ 67 | ))) | ~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/grouped_data.h:151:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 151 | for (int ii=0;ii::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 167 | for (int ii=0; ii::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here 203 | new tensor_rank_3_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here 214 | new tensor_rank_4_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:6: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here 203 | new tensor_rank_3_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here 214 | new tensor_rank_4_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/parameter_map.cpp:9: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/parameter_map.h: In instantiation of ‘void cctbx::xray::parameter_map::init_scatterer_part(const scitbx::af::const_ref&) [with XRayScattererType = cctbx::xray::scatterer<>]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/parameter_map.h:54:7: required from ‘cctbx::xray::parameter_map::parameter_map(const scitbx::af::const_ref&) [with XRayScattererType = cctbx::xray::scatterer<>]’ 54 | init_scatterer_part(scatterers); | ^~~~~~~~~~~~~~~~~~~ /usr/include/boost/python/object/value_holder.hpp:131:11: required from ‘boost::python::objects::value_holder::value_holder(PyObject*, A0) [with A0 = boost::python::objects::reference_to_value, scitbx::af::trivial_accessor>&>; Value = cctbx::xray::parameter_map >; PyObject = _object]’ 131 | PyObject* self BOOST_PP_COMMA_IF(N) BOOST_PP_ENUM_BINARY_PARAMS_Z(1, N, A, a)) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 132 | : m_held( | ~~~~~~~~~ 133 | BOOST_PP_REPEAT_1ST(N, BOOST_PYTHON_UNFORWARD_LOCAL, nil) | ~ /usr/include/boost/python/object/make_holder.hpp:95:18: required from ‘static void boost::python::objects::make_holder<1>::apply::execute(PyObject*, t0) [with Holder = boost::python::objects::value_holder > >; ArgList = boost::mpl::vector1, scitbx::af::trivial_accessor>&>; PyObject = _object; t0 = const scitbx::af::const_ref, scitbx::af::trivial_accessor>&]’ 95 | try { | ~^ 96 | (new (memory) Holder( | ~~~~~~~~~~~~~~~~~~~~~ /usr/include/boost/python/detail/make_keyword_range_fn.hpp:63:47: required from ‘boost::python::api::object boost::python::detail::make_keyword_range_constructor(const CallPolicies&, const keyword_range&, Holder*, ArgList*, Arity*) [with ArgList = boost::mpl::vector1, scitbx::af::trivial_accessor>&>; Arity = boost::mpl::size, scitbx::af::trivial_accessor>&> >; Holder = boost::python::objects::value_holder > >; CallPolicies = boost::python::default_call_policies; keyword_range = std::pair]’ 63 | return detail::make_keyword_range_function( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 64 | objects::make_holder | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 65 | ::template apply::execute | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 66 | , policies | ~~~~~~~~~~ 67 | , kw); | ~~~~~ /usr/include/boost/python/init.hpp:310:66: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /usr/include/boost/python/init.hpp:149:67: required from ‘void boost::python::init_base::visit(classT&) const [with classT = boost::python::class_ >, boost::python::detail::not_specified, boost::python::detail::not_specified, boost::python::detail::not_specified>; DerivedT = boost::python::init, scitbx::af::trivial_accessor>&, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_>]’ 149 | detail::define_class_init_helper::apply( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 150 | cl | ~~ 151 | , derived().call_policies() | ~~~~~~~~~~~~~~~~~~~~~~~~~~~ 152 | , signature() | ~~~~~~~~~~~~~ 153 | , n_arguments() | ~~~~~~~~~~~~~~~ 154 | , derived().doc_string() | ~~~~~~~~~~~~~~~~~~~~~~~~ 155 | , derived().keywords()); | ~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/boost/python/def_visitor.hpp:31:34: required from ‘static void boost::python::def_visitor_access::visit(const V&, classT&) [with V = boost::python::def_visitor, scitbx::af::trivial_accessor>&, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_> >; classT = boost::python::class_ >, boost::python::detail::not_specified, boost::python::detail::not_specified, boost::python::detail::not_specified>]’ 31 | v.derived_visitor().visit(c); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /usr/include/boost/python/def_visitor.hpp:67:34: required from ‘void boost::python::def_visitor::visit(classT&) const [with classT = boost::python::class_ >, boost::python::detail::not_specified, boost::python::detail::not_specified, boost::python::detail::not_specified>; DerivedVisitor = boost::python::init, scitbx::af::trivial_accessor>&, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_>]’ 67 | def_visitor_access::visit(*this, c); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /usr/include/boost/python/class.hpp:221:22: required from ‘boost::python::class_::self& boost::python::class_::def(const boost::python::def_visitor&) [with Derived = boost::python::init, scitbx::af::trivial_accessor>&, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_>; W = cctbx::xray::parameter_map >; X1 = boost::python::detail::not_specified; X2 = boost::python::detail::not_specified; X3 = boost::python::detail::not_specified; self = boost::python::class_ >, boost::python::detail::not_specified, boost::python::detail::not_specified, boost::python::detail::not_specified>]’ 221 | visitor.visit(*this); | ~~~~~~~~~~~~~^~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/parameter_map.cpp:46:11: required from ‘static void cctbx::xray::boost_python::parameter_map_wrapper::wrap(const char*) [with XRayScattererType = cctbx::xray::scatterer<>]’ 45 | class_("parameter_map", no_init) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 46 | .def(init const &>(( | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 47 | arg("scatterers")))) | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/parameter_map.cpp:60:50: required from here 60 | parameter_map_wrapper >::wrap("parameter_map"); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/parameter_map.h:61:28: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref, scitbx::af::trivial_accessor>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 61 | for(int i_sc=0; i_sc < scatterers.size(); ++i_sc) { | ~~~~~^~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scatterer.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scattering_type_registry.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/sampling_base.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/sampled_model_density.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/sampled_model_density.cpp:3: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here 203 | new tensor_rank_3_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here 214 | new tensor_rank_4_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/uctbx.h:11, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/change_of_basis_op.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tr_group.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/space_group.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_constraints.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:4: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small_plain.h: In instantiation of ‘scitbx::af::small_plain::small_plain(const OtherElementType*, const OtherElementType*) [with OtherElementType = float; ElementType = double; long unsigned int N = 10]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small.h:50:33: required from ‘scitbx::af::small::small(const OtherElementType*, const OtherElementType*) [with OtherElementType = float; ElementType = double; long unsigned int N = 10]’ 50 | : base_class(first, last) | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/eltbx/xray_scattering.h:155:11: required from ‘cctbx::eltbx::xray_scattering::gaussian cctbx::eltbx::xray_scattering::base::fetch() const [with long unsigned int N = 4]’ 155 | small_t(entry_->a, entry_->a+N), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scattering_type_registry.h:192:40: required from here 191 | ugs[ui] = eltbx::xray_scattering::it1992( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 192 | pair->first, exact).fetch(); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small_plain.h:69:15: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘long int’ [-Wsign-compare] 69 | if (N < last - first) throw_range_error(); | ~~^~~~~~~~~~~~~~ g++ -o cctbx/xray/boost_python/sampling_base.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/sampling_base.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/xray/boost_python/scatterer.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/scatterer.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/xray/boost_python/scatterer_flags.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/scatterer_flags.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/xray/boost_python/scattering_type_registry.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/scattering_type_registry.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/xray/boost_python/sigmaa.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/sigmaa.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scatterer.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scattering_type_registry.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/sampling_base.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/sampling_base.cpp:3: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here 203 | new tensor_rank_3_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here 214 | new tensor_rank_4_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/uctbx.h:11, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/change_of_basis_op.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tr_group.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/space_group.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_constraints.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:4: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small_plain.h: In instantiation of ‘scitbx::af::small_plain::small_plain(const OtherElementType*, const OtherElementType*) [with OtherElementType = float; ElementType = double; long unsigned int N = 10]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small.h:50:33: required from ‘scitbx::af::small::small(const OtherElementType*, const OtherElementType*) [with OtherElementType = float; ElementType = double; long unsigned int N = 10]’ 50 | : base_class(first, last) | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/eltbx/xray_scattering.h:155:11: required from ‘cctbx::eltbx::xray_scattering::gaussian cctbx::eltbx::xray_scattering::base::fetch() const [with long unsigned int N = 4]’ 155 | small_t(entry_->a, entry_->a+N), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scattering_type_registry.h:192:40: required from here 191 | ugs[ui] = eltbx::xray_scattering::it1992( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 192 | pair->first, exact).fetch(); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small_plain.h:69:15: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘long int’ [-Wsign-compare] 69 | if (N < last - first) throw_range_error(); | ~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scatterer_utils.h: In instantiation of ‘static void cctbx::xray::inelastic_form_factors::set(const scitbx::af::ref&, float, bool) [with ScattererType = cctbx::xray::scatterer<>; TableType = cctbx::eltbx::henke::table]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/scatterer.cpp:349:54: required from here 349 | inelastic_form_factors::set, | ^~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scatterer_utils.h:426:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 426 | for (int i=0; i < scatterers.size(); ++i) { | ~~^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scatterer_utils.h: In instantiation of ‘static void cctbx::xray::inelastic_form_factors::set(const scitbx::af::ref&, float, bool) [with ScattererType = cctbx::xray::scatterer<>; TableType = cctbx::eltbx::sasaki::table]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/scatterer.cpp:353:55: required from here 353 | inelastic_form_factors::set, | ^~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scatterer_utils.h:426:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 426 | for (int i=0; i < scatterers.size(); ++i) { | ~~^~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:6: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here 203 | new tensor_rank_3_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here 214 | new tensor_rank_4_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scatterer.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/scatterer_flags.cpp:7: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here 203 | new tensor_rank_3_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here 214 | new tensor_rank_4_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/assert.hpp:64, from /usr/include/boost/smart_ptr/shared_array.hpp:21, from /usr/include/boost/shared_array.hpp:17, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensor_rank_2.h:9, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:5: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = cctbx::xray::scatterer_flags; GetitemReturnValuePolicy = boost::python::return_internal_reference<>; std::string = std::__cxx11::basic_string]’ 130 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 131 | w_t, | ~~~~ 132 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/scatterer_flags.cpp:142:44: required from here 140 | class_ wrapper = scitbx::af::boost_python::shared_wrapper< | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 141 | scatterer_flags, | ~~~~~~~~~~~~~~~~ 142 | return_internal_reference<> >::wrap("shared_scatterer_flags"); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scatterer.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scattering_type_registry.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/scattering_type_registry.cpp:3: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 49 | std::auto_ptr | ^~~~~~~~ In file included from /usr/include/c++/15/memory:80, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/detail/misc.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny_plain.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/vec3.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/mat3.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/sym_mat3.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scatterer_flags.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scatterer.h:4: /usr/include/c++/15/bits/unique_ptr.h:58:28: note: declared here 58 | template class auto_ptr; | ^~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/scattering_type_registry.cpp: In static member function ‘static std::auto_ptr cctbx::xray::boost_python::{anonymous}::scattering_type_registry_wrappers::constructor_for_pickle(const boost::python::dict&, const boost::python::list&, const cctbx::xray::scattering_type_registry::unique_counts_t&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/scattering_type_registry.cpp:55:12: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 55 | std::auto_ptr self(new w_t); | ^~~~~~~~ /usr/include/c++/15/bits/unique_ptr.h:58:28: note: declared here 58 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:6: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here 203 | new tensor_rank_3_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here 214 | new tensor_rank_4_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/uctbx.h:11, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/change_of_basis_op.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tr_group.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/space_group.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_constraints.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:4: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small_plain.h: In instantiation of ‘scitbx::af::small_plain::small_plain(const OtherElementType*, const OtherElementType*) [with OtherElementType = float; ElementType = double; long unsigned int N = 10]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small.h:50:33: required from ‘scitbx::af::small::small(const OtherElementType*, const OtherElementType*) [with OtherElementType = float; ElementType = double; long unsigned int N = 10]’ 50 | : base_class(first, last) | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/eltbx/xray_scattering.h:155:11: required from ‘cctbx::eltbx::xray_scattering::gaussian cctbx::eltbx::xray_scattering::base::fetch() const [with long unsigned int N = 4]’ 155 | small_t(entry_->a, entry_->a+N), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scattering_type_registry.h:192:40: required from here 191 | ugs[ui] = eltbx::xray_scattering::it1992( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 192 | pair->first, exact).fetch(); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small_plain.h:69:15: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘long int’ [-Wsign-compare] 69 | if (N < last - first) throw_range_error(); | ~~^~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scatterer.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/sigmaa.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/sigmaa.cpp:8: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here 203 | new tensor_rank_3_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here 214 | new tensor_rank_4_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ g++ -o cctbx/xray/boost_python/structure_factors_direct.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/structure_factors_direct.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/xray/boost_python/structure_factors_simple.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/structure_factors_simple.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/xray/boost_python/targets.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/targets.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scatterer.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scattering_type_registry.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/structure_factors_direct.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/structure_factors_direct.cpp:3: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here 203 | new tensor_rank_3_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here 214 | new tensor_rank_4_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/uctbx.h:11, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/change_of_basis_op.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tr_group.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/space_group.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_constraints.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:4: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small_plain.h: In instantiation of ‘scitbx::af::small_plain::small_plain(const OtherElementType*, const OtherElementType*) [with OtherElementType = float; ElementType = double; long unsigned int N = 10]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small.h:50:33: required from ‘scitbx::af::small::small(const OtherElementType*, const OtherElementType*) [with OtherElementType = float; ElementType = double; long unsigned int N = 10]’ 50 | : base_class(first, last) | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/eltbx/xray_scattering.h:155:11: required from ‘cctbx::eltbx::xray_scattering::gaussian cctbx::eltbx::xray_scattering::base::fetch() const [with long unsigned int N = 4]’ 155 | small_t(entry_->a, entry_->a+N), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scattering_type_registry.h:192:40: required from here 191 | ugs[ui] = eltbx::xray_scattering::it1992( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 192 | pair->first, exact).fetch(); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small_plain.h:69:15: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘long int’ [-Wsign-compare] 69 | if (N < last - first) throw_range_error(); | ~~^~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scatterer.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scattering_type_registry.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/structure_factors_simple.h:12, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/structure_factors_simple.cpp:3: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here 203 | new tensor_rank_3_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here 214 | new tensor_rank_4_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/uctbx.h:11, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/change_of_basis_op.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tr_group.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/space_group.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_constraints.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:4: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small_plain.h: In instantiation of ‘scitbx::af::small_plain::small_plain(const OtherElementType*, const OtherElementType*) [with OtherElementType = float; ElementType = double; long unsigned int N = 10]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small.h:50:33: required from ‘scitbx::af::small::small(const OtherElementType*, const OtherElementType*) [with OtherElementType = float; ElementType = double; long unsigned int N = 10]’ 50 | : base_class(first, last) | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/eltbx/xray_scattering.h:155:11: required from ‘cctbx::eltbx::xray_scattering::gaussian cctbx::eltbx::xray_scattering::base::fetch() const [with long unsigned int N = 4]’ 155 | small_t(entry_->a, entry_->a+N), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scattering_type_registry.h:192:40: required from here 191 | ugs[ui] = eltbx::xray_scattering::it1992( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 192 | pair->first, exact).fetch(); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small_plain.h:69:15: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘long int’ [-Wsign-compare] 69 | if (N < last - first) throw_range_error(); | ~~^~~~~~~~~~~~~~ g++ -o cctbx/xray/boost_python/twin_components.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/twin_components.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/xray/boost_python/twin_targets.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/twin_targets.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/xray/boost_python/xray_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/xray_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/xray/observations/boost_python/observations.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/observations/boost_python/observations.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/xray/observations/boost_python/observations_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/observations/boost_python/observations_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/xray/targets/shelxl_wght_ls_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/targets/shelxl_wght_ls_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /usr/include/boost/assert.hpp:64, from /usr/include/boost/smart_ptr/shared_ptr.hpp:23, from /usr/include/boost/shared_ptr.hpp:17, from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, from /usr/include/boost/python/converter/arg_to_python.hpp:15, from /usr/include/boost/python/call.hpp:15, from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object/class.hpp:9, from /usr/include/boost/python/class.hpp:13, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/stl/vector_wrapper.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/twin_components.cpp:6: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared*>; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared*>; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::shared*>; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:300:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_variable_capacity::tuple_mapping_variable_capacity() [with ContainerType = scitbx::af::shared*>]’ 300 | tuple_mapping< | ^~~~~~~~~~~~~~ 301 | ContainerType, | ~~~~~~~~~~~~~~ 302 | variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/twin_components.cpp:91:77: required from here 91 | tuple_mapping_variable_capacity *> >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared*>; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared*>; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::shared*>; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:300:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_variable_capacity::tuple_mapping_variable_capacity() [with ContainerType = scitbx::af::shared*>]’ 300 | tuple_mapping< | ^~~~~~~~~~~~~~ 301 | ContainerType, | ~~~~~~~~~~~~~~ 302 | variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/twin_components.cpp:92:78: required from here 92 | tuple_mapping_variable_capacity *> >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/match_indices.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/lookup_utils.h:11, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:14, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/twin_targets.cpp:3: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/match.h:16:34: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 16 | struct additive_sigma : std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/15/string:51, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/istream:42, from /usr/include/c++/15/sstream:42, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:31, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:4: /usr/include/c++/15/bits/stl_function.h:134:12: note: declared here 134 | struct binary_function | ^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/match.h:18:20: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 18 | typedef std::binary_function base_type; | ^~~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:134:12: note: declared here 134 | struct binary_function | ^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/match.h:31:27: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 31 | struct average : std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:134:12: note: declared here 134 | struct binary_function | ^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/match.h:33:20: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 33 | typedef std::binary_function base_type; | ^~~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:134:12: note: declared here 134 | struct binary_function | ^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h: In instantiation of ‘scitbx::af::shared cctbx::xray::twin_targets::twin_completion::get_free_model_selection(scitbx::af::const_ref >, const scitbx::af::const_ref&) [with FloatType = double]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/twin_targets.cpp:42:50: required from here 42 | .def("get_free_model_selection", &w_t::get_free_model_selection) | ^~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:128:31: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 128 | CCTBX_ASSERT( index < flags.size() ); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:128:11: note: in expansion of macro ‘CCTBX_ASSERT’ 128 | CCTBX_ASSERT( index < flags.size() ); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h: In instantiation of ‘FloatType cctbx::xray::twin_targets::hemihedral_r_values::r_intensity_abs(const scitbx::af::const_ref&, const scitbx::af::const_ref >&, const scitbx::af::const_ref&, const FloatType&) [with FloatType = double]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/twin_targets.cpp:182:39: required from here 182 | .def("r_intensity_abs", &w_t::r_intensity_abs, | ^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:559:31: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 559 | CCTBX_ASSERT( obs_size_ == i_obs.size() ); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:559:6: note: in expansion of macro ‘CCTBX_ASSERT’ 559 | CCTBX_ASSERT( obs_size_ == i_obs.size() ); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:560:31: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘scitbx::af::const_ref >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 560 | CCTBX_ASSERT( calc_size_ == f_model.size() ); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:560:6: note: in expansion of macro ‘CCTBX_ASSERT’ 560 | CCTBX_ASSERT( calc_size_ == f_model.size() ); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:561:31: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 561 | CCTBX_ASSERT( (obs_size_ == selection.size()) || (selection.size()==0) ); | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:561:6: note: in expansion of macro ‘CCTBX_ASSERT’ 561 | CCTBX_ASSERT( (obs_size_ == selection.size()) || (selection.size()==0) ); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h: In instantiation of ‘FloatType cctbx::xray::twin_targets::hemihedral_r_values::r_intensity_sq(const scitbx::af::const_ref&, const scitbx::af::const_ref >&, const scitbx::af::const_ref&, const FloatType&) [with FloatType = double]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/twin_targets.cpp:189:38: required from here 189 | .def("r_intensity_sq", &w_t::r_intensity_sq, | ^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:604:30: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 604 | CCTBX_ASSERT( obs_size_ == i_obs.size() ); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:604:6: note: in expansion of macro ‘CCTBX_ASSERT’ 604 | CCTBX_ASSERT( obs_size_ == i_obs.size() ); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:605:31: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘scitbx::af::const_ref >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 605 | CCTBX_ASSERT( calc_size_ == f_model.size() ); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:605:6: note: in expansion of macro ‘CCTBX_ASSERT’ 605 | CCTBX_ASSERT( calc_size_ == f_model.size() ); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:606:31: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 606 | CCTBX_ASSERT( (obs_size_ == selection.size()) || (selection.size()==0) ); | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:606:6: note: in expansion of macro ‘CCTBX_ASSERT’ 606 | CCTBX_ASSERT( (obs_size_ == selection.size()) || (selection.size()==0) ); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h: In instantiation of ‘FloatType cctbx::xray::twin_targets::hemihedral_r_values::r_amplitude_abs(const scitbx::af::const_ref&, const scitbx::af::const_ref >&, const scitbx::af::const_ref&, const FloatType&) [with FloatType = double]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/twin_targets.cpp:196:39: required from here 196 | .def("r_amplitude_abs", &w_t::r_amplitude_abs, | ^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:649:30: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 649 | CCTBX_ASSERT( obs_size_ == f_obs.size() ); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:649:6: note: in expansion of macro ‘CCTBX_ASSERT’ 649 | CCTBX_ASSERT( obs_size_ == f_obs.size() ); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:650:31: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘scitbx::af::const_ref >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 650 | CCTBX_ASSERT( calc_size_ == f_model.size() ); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:650:6: note: in expansion of macro ‘CCTBX_ASSERT’ 650 | CCTBX_ASSERT( calc_size_ == f_model.size() ); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:651:31: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 651 | CCTBX_ASSERT( (obs_size_ == selection.size()) || (selection.size()==0) ); | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:651:6: note: in expansion of macro ‘CCTBX_ASSERT’ 651 | CCTBX_ASSERT( (obs_size_ == selection.size()) || (selection.size()==0) ); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h: In instantiation of ‘FloatType cctbx::xray::twin_targets::hemihedral_r_values::r_amplitude_sq(const scitbx::af::const_ref&, const scitbx::af::const_ref >&, const scitbx::af::const_ref&, const FloatType&) [with FloatType = double]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/twin_targets.cpp:203:38: required from here 203 | .def("r_amplitude_sq", &w_t::r_amplitude_sq, | ^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:697:30: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 697 | CCTBX_ASSERT( obs_size_ == f_obs.size() ); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:697:6: note: in expansion of macro ‘CCTBX_ASSERT’ 697 | CCTBX_ASSERT( obs_size_ == f_obs.size() ); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:698:31: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘scitbx::af::const_ref >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 698 | CCTBX_ASSERT( calc_size_ == f_model.size() ); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:698:6: note: in expansion of macro ‘CCTBX_ASSERT’ 698 | CCTBX_ASSERT( calc_size_ == f_model.size() ); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:699:31: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 699 | CCTBX_ASSERT( (obs_size_ == selection.size()) || (selection.size()==0) ); | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:699:6: note: in expansion of macro ‘CCTBX_ASSERT’ 699 | CCTBX_ASSERT( (obs_size_ == selection.size()) || (selection.size()==0) ); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h: In instantiation of ‘scitbx::af::tiny, 2> cctbx::xray::twin_targets::hemihedral_detwinner::detwin_with_model_data(const scitbx::af::const_ref&, const scitbx::af::const_ref&, const scitbx::af::const_ref >&, const FloatType&) const [with FloatType = double]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/twin_targets.cpp:263:45: required from here 263 | result = self.detwin_with_model_data(i_obs,sig_obs,f_model,twin_fraction); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:997:45: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘long int’ [-Wsign-compare] 997 | CCTBX_ASSERT(i_obs.size() > loc_twin_obs); // XXX trap for long standing seg. fault bug /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:997:19: note: in expansion of macro ‘CCTBX_ASSERT’ 997 | CCTBX_ASSERT(i_obs.size() > loc_twin_obs); // XXX trap for long standing seg. fault bug | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:1003:47: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘long int’ [-Wsign-compare] 1003 | CCTBX_ASSERT(sig_obs.size() > loc_twin_obs); // XXX trap for long standing seg. fault bug /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:1003:19: note: in expansion of macro ‘CCTBX_ASSERT’ 1003 | CCTBX_ASSERT(sig_obs.size() > loc_twin_obs); // XXX trap for long standing seg. fault bug | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:1006:41: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref >::size_type’ {aka ‘long unsigned int’} and ‘long int’ [-Wsign-compare] 1006 | CCTBX_ASSERT(f_model.size() > loc_calc); // XXX trap for long standing seg. fault bug /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:1006:13: note: in expansion of macro ‘CCTBX_ASSERT’ 1006 | CCTBX_ASSERT(f_model.size() > loc_calc); // XXX trap for long standing seg. fault bug | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:1010:47: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref >::size_type’ {aka ‘long unsigned int’} and ‘long int’ [-Wsign-compare] 1010 | CCTBX_ASSERT(f_model.size() > loc_twin_calc); // XXX trap for long standing seg. fault bug /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:1010:19: note: in expansion of macro ‘CCTBX_ASSERT’ 1010 | CCTBX_ASSERT(f_model.size() > loc_twin_calc); // XXX trap for long standing seg. fault bug | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h: In instantiation of ‘scitbx::af::tiny, 2> cctbx::xray::twin_targets::hemihedral_detwinner::detwin_with_model_data(const scitbx::af::const_ref&, const scitbx::af::const_ref&, const scitbx::af::const_ref&, const FloatType&) const [with FloatType = double]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/twin_targets.cpp:275:45: required from here 275 | result = self.detwin_with_model_data(i_obs,sig_obs,f_model,twin_fraction); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:936:43: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘long int’ [-Wsign-compare] 936 | CCTBX_ASSERT(i_obs.size() > loc_twin_obs); // XXX trap for long standing seg. fault bug /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:936:17: note: in expansion of macro ‘CCTBX_ASSERT’ 936 | CCTBX_ASSERT(i_obs.size() > loc_twin_obs); // XXX trap for long standing seg. fault bug | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:942:47: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘long int’ [-Wsign-compare] 942 | CCTBX_ASSERT(sig_obs.size() > loc_twin_obs); // XXX trap for long standing seg. fault bug /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:942:19: note: in expansion of macro ‘CCTBX_ASSERT’ 942 | CCTBX_ASSERT(sig_obs.size() > loc_twin_obs); // XXX trap for long standing seg. fault bug | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:945:45: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘long int’ [-Wsign-compare] 945 | CCTBX_ASSERT(f_model.size() > loc_calc); // XXX trap for long standing seg. fault bug /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:945:17: note: in expansion of macro ‘CCTBX_ASSERT’ 945 | CCTBX_ASSERT(f_model.size() > loc_calc); // XXX trap for long standing seg. fault bug | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:948:45: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘long int’ [-Wsign-compare] 948 | CCTBX_ASSERT(f_model.size() > loc_twin_calc); // XXX trap for long standing seg. fault bug /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:948:17: note: in expansion of macro ‘CCTBX_ASSERT’ 948 | CCTBX_ASSERT(f_model.size() > loc_twin_calc); // XXX trap for long standing seg. fault bug | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h: In instantiation of ‘cctbx::xray::twin_targets::hemihedral_r_values::hemihedral_r_values(const scitbx::af::const_ref >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&, const scitbx::mat3&) [with FloatType = double]’: /usr/include/boost/python/object/value_holder.hpp:131:11: required from ‘boost::python::objects::value_holder::value_holder(PyObject*, A0, A1, A2, A3, A4) [with A0 = boost::python::objects::reference_to_value >&>; A1 = boost::python::objects::reference_to_value >&>; A2 = boost::python::objects::reference_to_value; A3 = boost::python::objects::reference_to_value; A4 = boost::python::objects::reference_to_value&>; Value = cctbx::xray::twin_targets::hemihedral_r_values; PyObject = _object]’ 131 | PyObject* self BOOST_PP_COMMA_IF(N) BOOST_PP_ENUM_BINARY_PARAMS_Z(1, N, A, a)) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 132 | : m_held( | ~~~~~~~~~ 133 | BOOST_PP_REPEAT_1ST(N, BOOST_PYTHON_UNFORWARD_LOCAL, nil) | ~ /usr/include/boost/python/object/make_holder.hpp:95:18: required from ‘static void boost::python::objects::make_holder<5>::apply::execute(PyObject*, t0, t1, t2, t3, t4) [with Holder = boost::python::objects::value_holder >; ArgList = boost::mpl::vector5 >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&, const scitbx::mat3&>; PyObject = _object; t0 = const scitbx::af::const_ref >&; t1 = const scitbx::af::const_ref >&; t2 = const cctbx::sgtbx::space_group&; t3 = const bool&; t4 = const scitbx::mat3&]’ 95 | try { | ~^ 96 | (new (memory) Holder( | ~~~~~~~~~~~~~~~~~~~~~ /usr/include/boost/python/detail/make_keyword_range_fn.hpp:63:47: required from ‘boost::python::api::object boost::python::detail::make_keyword_range_constructor(const CallPolicies&, const keyword_range&, Holder*, ArgList*, Arity*) [with ArgList = boost::mpl::vector5 >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&, const scitbx::mat3&>; Arity = boost::mpl::size >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&, const scitbx::mat3&> >; Holder = boost::python::objects::value_holder >; CallPolicies = boost::python::default_call_policies; keyword_range = std::pair]’ 63 | return detail::make_keyword_range_function( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 64 | objects::make_holder | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 65 | ::template apply::execute | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 66 | , policies | ~~~~~~~~~~ 67 | , kw); | ~~~~~ /usr/include/boost/python/init.hpp:310:66: required from ‘void boost::python::detail::def_init_aux(ClassT&, const Signature&, NArgs, const CallPoliciesT&, const char*, const keyword_range&) [with ClassT = boost::python::class_ >; CallPoliciesT = boost::python::default_call_policies; Signature = boost::mpl::vector5 >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&, const scitbx::mat3&>; NArgs = boost::mpl::size >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&, const scitbx::mat3&> >; keyword_range = std::pair]’ 310 | , detail::make_keyword_range_constructor( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 311 | policies | ~~~~~~~~ 312 | , keywords_ | ~~~~~~~~~~~ 313 | , (typename ClassT::metadata::holder*)0 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 314 | ) | ~ /usr/include/boost/python/init.hpp:377:31: required from ‘static void boost::python::detail::define_class_init_helper<0>::apply(ClassT&, const CallPoliciesT&, const Signature&, NArgs, const char*, const boost::python::detail::keyword_range&) [with ClassT = boost::python::class_ >; CallPoliciesT = boost::python::default_call_policies; Signature = boost::mpl::vector5 >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&, const scitbx::mat3&>; NArgs = boost::mpl::size >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&, const scitbx::mat3&> >; boost::python::detail::keyword_range = std::pair]’ 377 | detail::def_init_aux(cl, args, NArgs(), policies, doc, keywords); | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/boost/python/init.hpp:149:67: required from ‘void boost::python::init_base::visit(classT&) const [with classT = boost::python::class_ >; DerivedT = boost::python::init >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&, const scitbx::mat3&>]’ 149 | detail::define_class_init_helper::apply( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 150 | cl | ~~ 151 | , derived().call_policies() | ~~~~~~~~~~~~~~~~~~~~~~~~~~~ 152 | , signature() | ~~~~~~~~~~~~~ 153 | , n_arguments() | ~~~~~~~~~~~~~~~ 154 | , derived().doc_string() | ~~~~~~~~~~~~~~~~~~~~~~~~ 155 | , derived().keywords()); | ~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/boost/python/def_visitor.hpp:31:34: required from ‘static void boost::python::def_visitor_access::visit(const V&, classT&) [with V = boost::python::def_visitor >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&, const scitbx::mat3&> >; classT = boost::python::class_ >]’ 31 | v.derived_visitor().visit(c); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /usr/include/boost/python/def_visitor.hpp:67:34: required from ‘void boost::python::def_visitor::visit(classT&) const [with classT = boost::python::class_ >; DerivedVisitor = boost::python::init >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&, const scitbx::mat3&>]’ 67 | def_visitor_access::visit(*this, c); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /usr/include/boost/python/class.hpp:221:22: required from ‘boost::python::class_::self& boost::python::class_::def(const boost::python::def_visitor&) [with Derived = boost::python::init >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&, const scitbx::mat3&>; W = cctbx::xray::twin_targets::hemihedral_r_values; X1 = boost::python::detail::not_specified; X2 = boost::python::detail::not_specified; X3 = boost::python::detail::not_specified; self = boost::python::class_ >]’ 221 | visitor.visit(*this); | ~~~~~~~~~~~~~^~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/twin_targets.cpp:169:13: required from here 168 | class_("hemihedral_r_values", no_init) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 169 | .def(init< | ~~~~^~~~~~ 170 | scitbx::af::const_ref< cctbx::miller::index<> > const&, // 1 obs indices | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 171 | scitbx::af::const_ref< cctbx::miller::index<> > const&, // 2 calc indices | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 172 | sgtbx::space_group const&, // 3 space group | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 173 | bool const&, // 4 anomalous flag | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 174 | scitbx::mat3 const& // 5 twin law | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 175 | > | ~ 176 | ((arg("hkl_obs"), | ~~~~~~~~~~~~~~~~~ 177 | arg("hkl_calc"), | ~~~~~~~~~~~~~~~~ 178 | arg("space_group"), | ~~~~~~~~~~~~~~~~~~~ 179 | arg("anomalous_flag"), | ~~~~~~~~~~~~~~~~~~~~~~ 180 | arg("twin_law") | ~~~~~~~~~~~~~~~ 181 | ))) | ~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:544:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘scitbx::af::const_ref >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 544 | for (long ii=0;ii::refine(const FloatType&) [with FloatType = double]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/quadrature.h:523:14: required from ‘scitbx::math::quadrature::gauss_legendre_engine::gauss_legendre_engine(const int&) [with FloatType = double]’ 523 | x = refine( start_guess ); | ^~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:1070:68: required from ‘cctbx::xray::twin_targets::single_twin_likelihood::single_twin_likelihood(const FloatType&, const FloatType&, const FloatType&, const FloatType&, const FloatType&, const FloatType&, const FloatType&, const FloatType&, const bool&, const bool&, const FloatType&, const FloatType&, const FloatType&, const int&) [with FloatType = double]’ 1070 | scitbx::math::quadrature::gauss_legendre_engine tmp_gle(n_quad_); | ^~~~~~~ /usr/include/boost/python/object/value_holder.hpp:131:11: required from ‘boost::python::objects::value_holder::value_holder(PyObject*, A0, A1, A2, A3, A4, A5, A6, A7, A8, A9, A10, A11, A12, A13) [with A0 = boost::python::objects::reference_to_value; A1 = boost::python::objects::reference_to_value; A2 = boost::python::objects::reference_to_value; A3 = boost::python::objects::reference_to_value; A4 = boost::python::objects::reference_to_value; A5 = boost::python::objects::reference_to_value; A6 = boost::python::objects::reference_to_value; A7 = boost::python::objects::reference_to_value; A8 = boost::python::objects::reference_to_value; A9 = boost::python::objects::reference_to_value; A10 = boost::python::objects::reference_to_value; A11 = boost::python::objects::reference_to_value; A12 = boost::python::objects::reference_to_value; A13 = boost::python::objects::reference_to_value; Value = cctbx::xray::twin_targets::single_twin_likelihood; PyObject = _object]’ 131 | PyObject* self BOOST_PP_COMMA_IF(N) BOOST_PP_ENUM_BINARY_PARAMS_Z(1, N, A, a)) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 132 | : m_held( | ~~~~~~~~~ 133 | BOOST_PP_REPEAT_1ST(N, BOOST_PYTHON_UNFORWARD_LOCAL, nil) | ~ /usr/include/boost/python/object/make_holder.hpp:95:18: required from ‘static void boost::python::objects::make_holder<14>::apply::execute(PyObject*, t0, t1, t2, t3, t4, t5, t6, t7, t8, t9, t10, t11, t12, t13) [with Holder = boost::python::objects::value_holder >; ArgList = boost::mpl::vector14; PyObject = _object; t0 = const double&; t1 = const double&; t2 = const double&; t3 = const double&; t4 = const double&; t5 = const double&; t6 = const double&; t7 = const double&; t8 = const bool&; t9 = const bool&; t10 = const double&; t11 = const double&; t12 = const double&; t13 = const int&]’ 95 | try { | ~^ 96 | (new (memory) Holder( | ~~~~~~~~~~~~~~~~~~~~~ /usr/include/boost/python/detail/make_keyword_range_fn.hpp:63:47: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /usr/include/boost/python/init.hpp:377:31: required from ‘static void boost::python::detail::define_class_init_helper<0>::apply(ClassT&, const CallPoliciesT&, const Signature&, NArgs, const char*, const boost::python::detail::keyword_range&) [with ClassT = boost::python::class_ >; CallPoliciesT = boost::python::default_call_policies; Signature = boost::mpl::vector14; NArgs = boost::mpl::size >; boost::python::detail::keyword_range = std::pair]’ 377 | detail::def_init_aux(cl, args, NArgs(), policies, doc, keywords); | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/boost/python/init.hpp:149:67: required from ‘void boost::python::init_base::visit(classT&) const [with classT = boost::python::class_ >; DerivedT = boost::python::init]’ 149 | detail::define_class_init_helper::apply( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 150 | cl | ~~ 151 | , derived().call_policies() | ~~~~~~~~~~~~~~~~~~~~~~~~~~~ 152 | , signature() | ~~~~~~~~~~~~~ 153 | , n_arguments() | ~~~~~~~~~~~~~~~ 154 | , derived().doc_string() | ~~~~~~~~~~~~~~~~~~~~~~~~ 155 | , derived().keywords()); | ~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/boost/python/def_visitor.hpp:31:34: required from ‘static void boost::python::def_visitor_access::visit(const V&, classT&) [with V = boost::python::def_visitor >; classT = boost::python::class_ >]’ 31 | v.derived_visitor().visit(c); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /usr/include/boost/python/def_visitor.hpp:67:34: required from ‘void boost::python::def_visitor::visit(classT&) const [with classT = boost::python::class_ >; DerivedVisitor = boost::python::init]’ 67 | def_visitor_access::visit(*this, c); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /usr/include/boost/python/class.hpp:221:22: required from ‘boost::python::class_::self& boost::python::class_::def(const boost::python::def_visitor&) [with Derived = boost::python::init; W = cctbx::xray::twin_targets::single_twin_likelihood; X1 = boost::python::detail::not_specified; X2 = boost::python::detail::not_specified; X3 = boost::python::detail::not_specified; self = boost::python::class_ >]’ 221 | visitor.visit(*this); | ~~~~~~~~~~~~~^~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/twin_targets.cpp:343:14: required from here 342 | class_("single_twin_likelihood", no_init) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 343 | .def(init< | ~~~~^~~~~~ 344 | double const&, double const&, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 345 | double const&, double const&, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 346 | double const&, double const&, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 347 | double const&, double const&, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 348 | bool const&, bool const&, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 349 | double const&, double const&, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 350 | double const&, int const& | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 351 | > | ~ 352 | ((arg("i_obs1"), arg("s_obs1"), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | arg("i_obs2"), arg("s_obs2"), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 354 | arg("f_calc1"), arg("f_calc2"), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 355 | arg("eps1"), arg("eps2"), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 356 | arg("centric1"),arg("centric2"), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 357 | arg("alpha"), arg("beta"), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 358 | arg("twin_fraction"), arg("n_quad") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 359 | )) | ~~ 360 | ) | ~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/quadrature.h:546:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 546 | for (int ii=0;ii >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 40 | if (pos < 0 || pos >= command_line_args.buffer.size()) { | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/utils/string_to_double_fmt.hpp:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/read.hpp:9: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/utils/string_to_double.hpp: In member function ‘void fem::utils::string_to_double::convert(fem::utils::simple_istream&, unsigned int, int)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/utils/string_to_double.hpp:115:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const unsigned int’ [-Wsign-compare] 115 | if (dexp <= ad_hoc_limits::max_digit_count) { | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/read.hpp: In member function ‘double fem::read_loop::read_fmt_double()’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/read.hpp:653:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 653 | if (iw+1 != ed.size()) { | ~~~~~^~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/variant.hpp:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/major_types.hpp:7: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/utils/equivalence.hpp: In member function ‘void fem::utils::equivalence::array_alignment::infer_diffs0_from_diff_matrix()’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/utils/equivalence.hpp:93:28: warning: comparison of integer expressions of different signedness: ‘const fem::ssize_t’ {aka ‘const long int’} and ‘fem::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 93 | if (c0e[0] == i0) { | ~~~~~~~^~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/major_types.hpp:8: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/write.hpp: In destructor ‘fem::write_loop::~write_loop()’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/write.hpp:704:24: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 704 | while (pos < internal_file_len) { | ~~~~^~~~~~~~~~~~~~~~~~~ g++ -o chiltbx/handle_test.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/chiltbx/handle_test.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cma_es/cma/cmaes.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/usr/include/python3.14 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cma_es/cma/cmaes.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o chiltbx/handle_test -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread chiltbx/handle_test.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread g++ -o cma_es/cma_es_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/usr/include/python3.14 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cma_es/cma_es_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o dxtbx/src/dxtbx/boost_python/compression.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/base/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx -I/usr/include/python3.14 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/compression.cc cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/compression.cc: In function ‘unsigned int dxtbx::boost_python::cbf_decompress(const char*, std::size_t, int*, std::size_t)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/compression.cc:124:50: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 124 | while ((j < packed_sz) && ((values - original) < values_sz)) { | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/compression.cc: In function ‘void dxtbx::boost_python::rod_TY5_TY6_decompress(int*, const char*, const char*, int, int, int)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/compression.cc:207:26: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] 207 | for (size_t iy = 0; iy < slow; iy++) { | ~~~^~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/compression.cc:228:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] 228 | for (int k = 0; k < nblock; k++) { | ~~^~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/compression.cc:254:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] 254 | for (int j = 0; j < nbit; j++) { | ~~^~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/compression.cc:261:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] 261 | for (int j = 0; j < BLOCKSIZE; j++) { | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/compression.cc:282:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] 282 | for (int i = 0; i < nrest; i++) { | ~~^~~~~~~ g++ -o dxtbx/src/dxtbx/boost_python/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/base/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx -I/usr/include/python3.14 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o dxtbx/src/dxtbx/boost_python/flumpy.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -DBUILD_CBF -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/base/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx -I/usr/include/python3.14 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o dxtbx/src/dxtbx/boost_python/imageset_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/base/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx -I/usr/include/python3.14 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:31, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/ext.cpp:3: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/ext.cpp: In function ‘scitbx::af::flex_int dxtbx::boost_python::uncompress(const boost::python::api::object&, const int&, const int&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/ext.cpp:183:21: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 183 | DXTBX_ASSERT(nn == (slow * fast)); | ~~~^~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/ext.cpp:183:5: note: in expansion of macro ‘DXTBX_ASSERT’ 183 | DXTBX_ASSERT(nn == (slow * fast)); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/ext.cpp: In function ‘void dxtbx::boost_python::radial_average(scitbx::af::versa >&, scitbx::af::versa >&, const scitbx::vec2&, scitbx::af::shared, scitbx::af::shared, scitbx::af::shared, double, double, const scitbx::vec2&, const scitbx::vec2&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/ext.cpp:218:43: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] 218 | for (std::size_t y = upper_left[1]; y < lower_right[1]; y++) { /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/ext.cpp:219:45: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] 219 | for (std::size_t x = upper_left[0]; x < lower_right[0]; x++) { g++ -o dxtbx/src/dxtbx/format/boost_python/cbf_read_buffer.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/base/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx -I/usr/include/python3.14 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/format/boost_python/cbf_read_buffer.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o dxtbx/src/dxtbx/format/boost_python/image_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/base/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx -I/usr/include/python3.14 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o dxtbx/src/dxtbx/format/boost_python/nexus_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/base/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx -I/usr/include/python3.14 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/format/boost_python/nexus_ext.cc cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc: In instantiation of ‘pybind11::buffer_info get_buffer_specific(grid) [with T = bool; grid = scitbx::af::versa >]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:247:31: required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ 247 | return get_buffer_specific(obj); | ~~~~~~~~~~~~~~~~~~~^~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:254:36: required from here 254 | return get_buffer(obj.ptr()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:64:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 64 | for (int i = 0; i < flex.accessor().nd(); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:66:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 66 | for (int j = i + 1; j < flex.accessor().nd(); ++j) { | ~~^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc: In instantiation of ‘pybind11::buffer_info get_buffer_specific(grid) [with T = long unsigned int; grid = scitbx::af::versa >]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:247:31: required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ 247 | return get_buffer_specific(obj); | ~~~~~~~~~~~~~~~~~~~^~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ 249 | return get_buffer(ptr); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:254:36: required from here 254 | return get_buffer(obj.ptr()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:64:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 64 | for (int i = 0; i < flex.accessor().nd(); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:66:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 66 | for (int j = i + 1; j < flex.accessor().nd(); ++j) { | ~~^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc: In instantiation of ‘pybind11::buffer_info get_buffer_specific(grid) [with T = unsigned char; grid = scitbx::af::versa >]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: recursively required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ 249 | return get_buffer(ptr); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:254:36: required from here 254 | return get_buffer(obj.ptr()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:64:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 64 | for (int i = 0; i < flex.accessor().nd(); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:66:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 66 | for (int j = i + 1; j < flex.accessor().nd(); ++j) { | ~~^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/format/boost_python/cbf_read_buffer.cpp:10:1: warning: ‘typedef’ was ignored in this declaration 10 | typedef struct cbf_handle_struct; | ^~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc: In instantiation of ‘pybind11::buffer_info get_buffer_specific(grid) [with T = short unsigned int; grid = scitbx::af::versa >]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: recursively required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ 249 | return get_buffer(ptr); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:254:36: required from here 254 | return get_buffer(obj.ptr()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:64:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 64 | for (int i = 0; i < flex.accessor().nd(); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:66:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 66 | for (int j = i + 1; j < flex.accessor().nd(); ++j) { | ~~^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc: In instantiation of ‘pybind11::buffer_info get_buffer_specific(grid) [with T = unsigned int; grid = scitbx::af::versa >]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: recursively required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ 249 | return get_buffer(ptr); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:254:36: required from here 254 | return get_buffer(obj.ptr()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:64:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 64 | for (int i = 0; i < flex.accessor().nd(); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:66:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 66 | for (int j = i + 1; j < flex.accessor().nd(); ++j) { | ~~^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc: In instantiation of ‘pybind11::buffer_info get_buffer_specific(grid) [with T = int; grid = scitbx::af::versa >]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: recursively required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ 249 | return get_buffer(ptr); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:254:36: required from here 254 | return get_buffer(obj.ptr()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:64:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 64 | for (int i = 0; i < flex.accessor().nd(); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:66:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 66 | for (int j = i + 1; j < flex.accessor().nd(); ++j) { | ~~^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc: In instantiation of ‘pybind11::buffer_info get_buffer_specific(grid) [with T = long int; grid = scitbx::af::versa >]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: recursively required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ 249 | return get_buffer(ptr); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:254:36: required from here 254 | return get_buffer(obj.ptr()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:64:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 64 | for (int i = 0; i < flex.accessor().nd(); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:66:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 66 | for (int j = i + 1; j < flex.accessor().nd(); ++j) { | ~~^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc: In instantiation of ‘pybind11::buffer_info get_buffer_specific(grid) [with T = signed char; grid = scitbx::af::versa >]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: recursively required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ 249 | return get_buffer(ptr); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:254:36: required from here 254 | return get_buffer(obj.ptr()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:64:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 64 | for (int i = 0; i < flex.accessor().nd(); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:66:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 66 | for (int j = i + 1; j < flex.accessor().nd(); ++j) { | ~~^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc: In instantiation of ‘pybind11::buffer_info get_buffer_specific(grid) [with T = short int; grid = scitbx::af::versa >]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: recursively required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ 249 | return get_buffer(ptr); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:254:36: required from here 254 | return get_buffer(obj.ptr()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:64:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 64 | for (int i = 0; i < flex.accessor().nd(); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:66:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 66 | for (int j = i + 1; j < flex.accessor().nd(); ++j) { | ~~^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc: In instantiation of ‘pybind11::buffer_info get_buffer_specific(grid) [with T = float; grid = scitbx::af::versa >]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: recursively required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ 249 | return get_buffer(ptr); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:254:36: required from here 254 | return get_buffer(obj.ptr()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:64:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 64 | for (int i = 0; i < flex.accessor().nd(); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:66:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 66 | for (int j = i + 1; j < flex.accessor().nd(); ++j) { | ~~^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc: In instantiation of ‘pybind11::buffer_info get_buffer_specific(grid) [with T = double; grid = scitbx::af::versa >]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: recursively required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ 249 | return get_buffer(ptr); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:254:36: required from here 254 | return get_buffer(obj.ptr()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:64:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 64 | for (int i = 0; i < flex.accessor().nd(); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:66:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 66 | for (int j = i + 1; j < flex.accessor().nd(); ++j) { | ~~^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc: In instantiation of ‘pybind11::buffer_info get_buffer_specific(grid >) [with T = double; grid > = scitbx::af::versa, scitbx::af::flex_grid<> >]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: recursively required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ 249 | return get_buffer(ptr); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:254:36: required from here 254 | return get_buffer(obj.ptr()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:88:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 88 | for (int i = 0; i < dim_sizes.size(); ++i) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:90:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 90 | for (int j = i + 1; j < dim_sizes.size(); ++j) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc: In instantiation of ‘pybind11::buffer_info get_buffer_specific(grid >) [with T = int; grid > = scitbx::af::versa, scitbx::af::flex_grid<> >]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: recursively required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ 249 | return get_buffer(ptr); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:254:36: required from here 254 | return get_buffer(obj.ptr()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:88:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 88 | for (int i = 0; i < dim_sizes.size(); ++i) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:90:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 90 | for (int j = i + 1; j < dim_sizes.size(); ++j) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc: In instantiation of ‘pybind11::buffer_info get_buffer_specific(grid >) [with T = double; grid > = scitbx::af::versa, scitbx::af::flex_grid<> >]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: recursively required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ 249 | return get_buffer(ptr); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:254:36: required from here 254 | return get_buffer(obj.ptr()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:138:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 138 | for (int i = 0; i < dim_sizes.size(); ++i) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:140:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 140 | for (int j = i + 1; j < dim_sizes.size(); ++j) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc: In instantiation of ‘pybind11::buffer_info get_buffer_specific(grid >) [with T = double; grid > = scitbx::af::versa, scitbx::af::flex_grid<> >]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: recursively required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ 249 | return get_buffer(ptr); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:254:36: required from here 254 | return get_buffer(obj.ptr()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:166:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 166 | for (int i = 0; i < dim_sizes.size(); ++i) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:168:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 168 | for (int j = i + 1; j < dim_sizes.size(); ++j) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc: In instantiation of ‘pybind11::buffer_info get_buffer_specific(grid >) [with T = long unsigned int; grid > = scitbx::af::versa, scitbx::af::flex_grid<> >]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: recursively required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ 249 | return get_buffer(ptr); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:254:36: required from here 254 | return get_buffer(obj.ptr()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:191:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 191 | for (int i = 0; i < dim_sizes.size(); ++i) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:193:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 193 | for (int j = i + 1; j < dim_sizes.size(); ++j) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc: In instantiation of ‘pybind11::buffer_info get_buffer_specific(grid >) [with T = double; grid > = scitbx::af::versa, scitbx::af::flex_grid<> >]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: recursively required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ 249 | return get_buffer(ptr); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:254:36: required from here 254 | return get_buffer(obj.ptr()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:215:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 215 | for (int i = 0; i < dim_sizes.size(); ++i) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:217:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 217 | for (int j = i + 1; j < dim_sizes.size(); ++j) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc: In instantiation of ‘pybind11::buffer_info get_buffer_specific(grid >) [with T = int; grid > = scitbx::af::versa, scitbx::af::flex_grid<> >]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: recursively required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ 249 | return get_buffer(ptr); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:254:36: required from here 254 | return get_buffer(obj.ptr()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:113:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 113 | for (int i = 0; i < dim_sizes.size(); ++i) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:115:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 115 | for (int j = i + 1; j < dim_sizes.size(); ++j) { | ~~^~~~~~~~~~~~~~~~~~ g++ -o dxtbx/src/dxtbx/masking/boost_python/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/base/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx -I/usr/include/python3.14 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/masking/boost_python/ext.cc cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h:24, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:9: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam()’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:551:18: warning: ‘scitbx::vec3 dxtbx::model::Beam::direction_’ [-Wreorder] 551 | vec3 direction_; | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:93:5: warning: when initialized here [-Wreorder] 93 | Beam() | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:126:5: warning: when initialized here [-Wreorder] 126 | Beam(vec3 direction, double wavelength) | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:165:5: warning: when initialized here [-Wreorder] 165 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:193:5: warning: when initialized here [-Wreorder] 193 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:227:5: warning: when initialized here [-Wreorder] 227 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In member function ‘virtual scitbx::af::shared > dxtbx::model::PolychromaticBeam::get_s0_at_scan_points() const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:760:52: warning: left operand of comma operator has no effect [-Wunused-value] 760 | return scitbx::af::shared >(1, (0., 0., 0.)); | ^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:760:60: warning: right operand of comma operator has no effect [-Wunused-value] 760 | return scitbx::af::shared >(1, (0., 0., 0.)); | ^~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:22, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/detector.h:25, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h:25: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:288:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 288 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:289:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 289 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:328:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 328 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:329:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 329 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:408:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 408 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:409:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 409 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:449:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 449 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:450:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 450 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h: In member function ‘void dxtbx::model::Panel::apply_untrusted_rectangle_mask(scitbx::af::ref >) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:435:36: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 435 | for (std::size_t y = y0; y < y1; ++y) { | ~~^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:436:38: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 436 | for (std::size_t x = x0; x < x1; ++x) { | ~~^~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:22, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h:27: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h: In function ‘scitbx::af::shared dxtbx::model::get_mod2pi_angles_in_range(scitbx::vec2, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h:89:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 89 | for (std::size_t i = 0; i < n_angles; ++i) { | ~~^~~~~~~~~~ g++ -o dxtbx/src/dxtbx/model/boost_python/beam.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/base/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx -I/usr/include/python3.14 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/beam.cc cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:31, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:6: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In constructor ‘dxtbx::model::Scan::Scan(scitbx::vec2, dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >&, int)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:148:44: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 148 | DXTBX_ASSERT(properties_table.size() == num_images_); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:148:7: note: in expansion of macro ‘DXTBX_ASSERT’ 148 | DXTBX_ASSERT(properties_table.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_properties(dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:242:37: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 242 | DXTBX_ASSERT(new_table.size() == num_images_); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:242:7: note: in expansion of macro ‘DXTBX_ASSERT’ 242 | DXTBX_ASSERT(new_table.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_oscillation(scitbx::vec2)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:397:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 397 | for (std::size_t i = 0; i < num_images_; ++i) { | ~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_exposure_times(scitbx::af::shared)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:411:42: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 411 | DXTBX_ASSERT(exposure_times.size() == num_images_); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:411:7: note: in expansion of macro ‘DXTBX_ASSERT’ 411 | DXTBX_ASSERT(exposure_times.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_epochs(const scitbx::af::shared&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:417:34: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 417 | DXTBX_ASSERT(epochs.size() == num_images_); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:417:7: note: in expansion of macro ‘DXTBX_ASSERT’ 417 | DXTBX_ASSERT(epochs.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::append(const dxtbx::model::Scan&, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:556:39: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 556 | DXTBX_ASSERT(properties_.size() == num_images_); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:556:7: note: in expansion of macro ‘DXTBX_ASSERT’ 556 | DXTBX_ASSERT(properties_.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc: In instantiation of ‘std::shared_ptr > dxtbx::format::boost_python::make_image_from_tuple(boost::python::tuple) [with T = bool]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:125:40: required from ‘void dxtbx::format::boost_python::image_wrapper(const char*) [with T = bool]’ 125 | .def("__init__", make_constructor(&make_image_from_tuple)) | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:141:24: required from here 141 | image_wrapper("ImageBool"); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:51:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 51 | for (std::size_t i = 0; i < boost::python::len(data); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc: In instantiation of ‘std::shared_ptr > dxtbx::format::boost_python::make_image_from_tuple(boost::python::tuple) [with T = int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:125:40: required from ‘void dxtbx::format::boost_python::image_wrapper(const char*) [with T = int]’ 125 | .def("__init__", make_constructor(&make_image_from_tuple)) | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:142:23: required from here 142 | image_wrapper("ImageInt"); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:51:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 51 | for (std::size_t i = 0; i < boost::python::len(data); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc: In instantiation of ‘std::shared_ptr > dxtbx::format::boost_python::make_image_from_tuple(boost::python::tuple) [with T = double]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:125:40: required from ‘void dxtbx::format::boost_python::image_wrapper(const char*) [with T = double]’ 125 | .def("__init__", make_constructor(&make_image_from_tuple)) | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:143:26: required from here 143 | image_wrapper("ImageDouble"); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:51:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 51 | for (std::size_t i = 0; i < boost::python::len(data); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc: In instantiation of ‘static void dxtbx::format::boost_python::ImagePickleSuite::setstate(dxtbx::format::Image&, boost::python::tuple) [with T = bool]’: /usr/include/boost/python/class.hpp:345:9: required from ‘boost::python::class_::self& boost::python::class_::def_pickle(const PickleSuiteType&) [with PickleSuiteType = dxtbx::format::boost_python::ImagePickleSuite; W = dxtbx::format::Image; X1 = boost::python::detail::not_specified; X2 = boost::python::detail::not_specified; X3 = boost::python::detail::not_specified; self = boost::python::class_, boost::python::detail::not_specified, boost::python::detail::not_specified, boost::python::detail::not_specified>]’ 345 | &PickleSuiteType::setstate, | ^~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:134:18: required from ‘void dxtbx::format::boost_python::image_wrapper(const char*) [with T = bool]’ 122 | class_(name) | ~~~~~~~~~~~~~~~~~~~~~~~~ 123 | .def(init()) | ~~~~~~~~~~~~~~~~~~~~~~~ 124 | .def("__init__", make_constructor(&make_image_from_flex)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 125 | .def("__init__", make_constructor(&make_image_from_tuple)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 126 | .def("__getitem__", &image_type::tile) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 127 | .def("tile", &image_type::tile) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 128 | .def("tile_names", &image_type::tile_names) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 129 | .def("n_tiles", &image_type::n_tiles) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 130 | .def("empty", &image_type::empty) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 131 | .def("append", &image_type::push_back) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 132 | .def("__len__", &image_type::n_tiles) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | .def("__iter__", range(&image_type::begin, &image_type::end)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 134 | .def_pickle(ImagePickleSuite()); | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:141:24: required from here 141 | image_wrapper("ImageBool"); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:98:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 98 | for (std::size_t i = 0; i < boost::python::len(tile_list); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc: In instantiation of ‘static void dxtbx::format::boost_python::ImagePickleSuite::setstate(dxtbx::format::Image&, boost::python::tuple) [with T = int]’: /usr/include/boost/python/class.hpp:345:9: required from ‘boost::python::class_::self& boost::python::class_::def_pickle(const PickleSuiteType&) [with PickleSuiteType = dxtbx::format::boost_python::ImagePickleSuite; W = dxtbx::format::Image; X1 = boost::python::detail::not_specified; X2 = boost::python::detail::not_specified; X3 = boost::python::detail::not_specified; self = boost::python::class_, boost::python::detail::not_specified, boost::python::detail::not_specified, boost::python::detail::not_specified>]’ 345 | &PickleSuiteType::setstate, | ^~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:134:18: required from ‘void dxtbx::format::boost_python::image_wrapper(const char*) [with T = int]’ 122 | class_(name) | ~~~~~~~~~~~~~~~~~~~~~~~~ 123 | .def(init()) | ~~~~~~~~~~~~~~~~~~~~~~~ 124 | .def("__init__", make_constructor(&make_image_from_flex)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 125 | .def("__init__", make_constructor(&make_image_from_tuple)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 126 | .def("__getitem__", &image_type::tile) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 127 | .def("tile", &image_type::tile) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 128 | .def("tile_names", &image_type::tile_names) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 129 | .def("n_tiles", &image_type::n_tiles) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 130 | .def("empty", &image_type::empty) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 131 | .def("append", &image_type::push_back) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 132 | .def("__len__", &image_type::n_tiles) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | .def("__iter__", range(&image_type::begin, &image_type::end)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 134 | .def_pickle(ImagePickleSuite()); | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:142:23: required from here 142 | image_wrapper("ImageInt"); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:98:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 98 | for (std::size_t i = 0; i < boost::python::len(tile_list); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc: In instantiation of ‘static void dxtbx::format::boost_python::ImagePickleSuite::setstate(dxtbx::format::Image&, boost::python::tuple) [with T = double]’: /usr/include/boost/python/class.hpp:345:9: required from ‘boost::python::class_::self& boost::python::class_::def_pickle(const PickleSuiteType&) [with PickleSuiteType = dxtbx::format::boost_python::ImagePickleSuite; W = dxtbx::format::Image; X1 = boost::python::detail::not_specified; X2 = boost::python::detail::not_specified; X3 = boost::python::detail::not_specified; self = boost::python::class_, boost::python::detail::not_specified, boost::python::detail::not_specified, boost::python::detail::not_specified>]’ 345 | &PickleSuiteType::setstate, | ^~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:134:18: required from ‘void dxtbx::format::boost_python::image_wrapper(const char*) [with T = double]’ 122 | class_(name) | ~~~~~~~~~~~~~~~~~~~~~~~~ 123 | .def(init()) | ~~~~~~~~~~~~~~~~~~~~~~~ 124 | .def("__init__", make_constructor(&make_image_from_flex)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 125 | .def("__init__", make_constructor(&make_image_from_tuple)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 126 | .def("__getitem__", &image_type::tile) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 127 | .def("tile", &image_type::tile) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 128 | .def("tile_names", &image_type::tile_names) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 129 | .def("n_tiles", &image_type::n_tiles) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 130 | .def("empty", &image_type::empty) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 131 | .def("append", &image_type::push_back) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 132 | .def("__len__", &image_type::n_tiles) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | .def("__iter__", range(&image_type::begin, &image_type::end)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 134 | .def_pickle(ImagePickleSuite()); | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:143:26: required from here 143 | image_wrapper("ImageDouble"); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:98:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 98 | for (std::size_t i = 0; i < boost::python::len(tile_list); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/masking/goniometer_shadow_masking.h:12, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h:30: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/masking/masking.h: In function ‘void dxtbx::masking::mask_untrusted_circle(scitbx::af::ref >, double, double, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/masking/masking.h:79:32: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 79 | for (std::size_t j = y0; j < y1; ++j) { | ~~^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/masking/masking.h:80:34: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 80 | for (std::size_t i = x0; i < x1; ++i) { | ~~^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/masking/masking.h: In function ‘void dxtbx::masking::mask_untrusted_polygon(scitbx::af::ref >, const scitbx::af::const_ref >&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/masking/masking.h:143:32: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 143 | for (std::size_t j = y0; j < y1; ++j) { | ~~^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/masking/masking.h:144:34: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 144 | for (std::size_t i = x0; i < x1; ++i) { | ~~^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h: In member function ‘dxtbx::format::ImageBuffer dxtbx::ImageSet::get_raw_data(std::size_t)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h:651:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 651 | if (data_cache_.index == index) { | ~~~~~~~~~~~~~~~~~~^~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h: In member function ‘dxtbx::format::Image dxtbx::ImageSet::get_raw_data_as_double(std::size_t)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h:1119:38: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 1119 | if (double_raw_data_cache_.index == index) { | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h: At global scope: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h:1066:20: warning: ‘virtual dxtbx::ImageSet dxtbx::ImageSet::partial_set(boost::python::api::object, std::size_t, std::size_t) const’ was hidden [-Woverloaded-virtual=] 1066 | virtual ImageSet partial_set(boost::python::object reader, | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h:1206:12: note: by ‘dxtbx::ImageSet dxtbx::ImageGrid::partial_set(std::size_t, std::size_t) const’ 1206 | ImageSet partial_set(std::size_t first, std::size_t last) const { | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h: In constructor ‘dxtbx::ImageGrid::ImageGrid(const dxtbx::ImageSetData&, scitbx::af::int2)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h:1142:46: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 1142 | DXTBX_ASSERT(grid_size[0] * grid_size[1] == size()); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h:1142:5: note: in expansion of macro ‘DXTBX_ASSERT’ 1142 | DXTBX_ASSERT(grid_size[0] * grid_size[1] == size()); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h: In constructor ‘dxtbx::ImageGrid::ImageGrid(const dxtbx::ImageSetData&, const scitbx::af::const_ref&, scitbx::af::int2)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h:1156:46: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 1156 | DXTBX_ASSERT(grid_size[0] * grid_size[1] == size()); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h:1156:5: note: in expansion of macro ‘DXTBX_ASSERT’ 1156 | DXTBX_ASSERT(grid_size[0] * grid_size[1] == size()); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h: At global scope: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h:1066:20: warning: ‘virtual dxtbx::ImageSet dxtbx::ImageSet::partial_set(boost::python::api::object, std::size_t, std::size_t) const’ was hidden [-Woverloaded-virtual=] 1066 | virtual ImageSet partial_set(boost::python::object reader, | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h:1477:12: note: by ‘dxtbx::ImageSet dxtbx::ImageSequence::partial_set(std::size_t, std::size_t) const’ 1477 | ImageSet partial_set(std::size_t first, std::size_t last) const { | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h: In constructor ‘dxtbx::ImageSequence::ImageSequence(const dxtbx::ImageSetData&, const dxtbx::ImageSet::beam_ptr&, const dxtbx::ImageSet::detector_ptr&, const dxtbx::ImageSet::goniometer_ptr&, const dxtbx::ImageSet::scan_ptr&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h:1241:23: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 1241 | if (data.size() != scan->get_num_images()) { | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h: In constructor ‘dxtbx::ImageSequence::ImageSequence(const dxtbx::ImageSetData&, const scitbx::af::const_ref&, const dxtbx::ImageSet::beam_ptr&, const dxtbx::ImageSet::detector_ptr&, const dxtbx::ImageSet::goniometer_ptr&, const dxtbx::ImageSet::scan_ptr&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h:1280:26: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 1280 | if (indices.size() != scan->get_num_images()) { | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h: In member function ‘void dxtbx::ImageSequence::set_scan(const dxtbx::ImageSet::scan_ptr&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h:1402:32: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 1402 | if (scan->get_num_images() != size()) { | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h:1418:41: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 1418 | DXTBX_ASSERT(scan->get_num_images() == size()); | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h:1418:5: note: in expansion of macro ‘DXTBX_ASSERT’ 1418 | DXTBX_ASSERT(scan->get_num_images() == size()); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h: In instantiation of ‘dxtbx::format::Image dxtbx::ImageSetData::get_image_from_tuple(boost::python::tuple) [with T = double]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h:469:56: required from here 469 | buffer = ImageBuffer(get_image_from_tuple(obj)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h:505:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 505 | for (std::size_t i = 0; i < boost::python::len(obj); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h: In instantiation of ‘dxtbx::format::Image dxtbx::ImageSetData::get_image_from_tuple(boost::python::tuple) [with T = float]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h:471:55: required from here 471 | buffer = ImageBuffer(get_image_from_tuple(obj)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h:505:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 505 | for (std::size_t i = 0; i < boost::python::len(obj); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h: In instantiation of ‘dxtbx::format::Image dxtbx::ImageSetData::get_image_from_tuple(boost::python::tuple) [with T = int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h:473:53: required from here 473 | buffer = ImageBuffer(get_image_from_tuple(obj)); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h:505:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 505 | for (std::size_t i = 0; i < boost::python::len(obj); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/beam.cc:17: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam()’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:551:18: warning: ‘scitbx::vec3 dxtbx::model::Beam::direction_’ [-Wreorder] 551 | vec3 direction_; | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:93:5: warning: when initialized here [-Wreorder] 93 | Beam() | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:126:5: warning: when initialized here [-Wreorder] 126 | Beam(vec3 direction, double wavelength) | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:165:5: warning: when initialized here [-Wreorder] 165 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:193:5: warning: when initialized here [-Wreorder] 193 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:227:5: warning: when initialized here [-Wreorder] 227 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In member function ‘virtual scitbx::af::shared > dxtbx::model::PolychromaticBeam::get_s0_at_scan_points() const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:760:52: warning: left operand of comma operator has no effect [-Wunused-value] 760 | return scitbx::af::shared >(1, (0., 0., 0.)); | ^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:760:60: warning: right operand of comma operator has no effect [-Wunused-value] 760 | return scitbx::af::shared >(1, (0., 0., 0.)); | ^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc: In instantiation of ‘static void dxtbx::boost_python::ImageSetDataPickleSuite::set_model_list(dxtbx::ImageSetData&, boost::python::tuple, Func) [with Model = dxtbx::model::BeamBase; Func = void (dxtbx::ImageSetData::*)(const std::shared_ptr&, long unsigned int)]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:250:56: required from here 250 | ImageSetDataPickleSuite::set_model_list( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 251 | obj, | ~~~~ 252 | boost::python::extract(models[0])(), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 253 | &ImageSetData::set_beam); | ~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:232:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 232 | for (std::size_t i = 0; i < boost::python::len(models); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:236:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 236 | for (std::size_t i = 0; i < boost::python::len(indices); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc: In instantiation of ‘static void dxtbx::boost_python::ImageSetDataPickleSuite::set_model_list(dxtbx::ImageSetData&, boost::python::tuple, Func) [with Model = dxtbx::model::Detector; Func = void (dxtbx::ImageSetData::*)(const std::shared_ptr&, long unsigned int)]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:254:56: required from here 254 | ImageSetDataPickleSuite::set_model_list( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 255 | obj, | ~~~~ 256 | boost::python::extract(models[1]), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 257 | &ImageSetData::set_detector); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:232:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 232 | for (std::size_t i = 0; i < boost::python::len(models); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:236:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 236 | for (std::size_t i = 0; i < boost::python::len(indices); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc: In instantiation of ‘static void dxtbx::boost_python::ImageSetDataPickleSuite::set_model_list(dxtbx::ImageSetData&, boost::python::tuple, Func) [with Model = dxtbx::model::Goniometer; Func = void (dxtbx::ImageSetData::*)(const std::shared_ptr&, long unsigned int)]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:258:58: required from here 258 | ImageSetDataPickleSuite::set_model_list( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 259 | obj, | ~~~~ 260 | boost::python::extract(models[2]), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 261 | &ImageSetData::set_goniometer); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:232:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 232 | for (std::size_t i = 0; i < boost::python::len(models); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:236:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 236 | for (std::size_t i = 0; i < boost::python::len(indices); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc: In instantiation of ‘static void dxtbx::boost_python::ImageSetDataPickleSuite::set_model_list(dxtbx::ImageSetData&, boost::python::tuple, Func) [with Model = dxtbx::model::Scan; Func = void (dxtbx::ImageSetData::*)(const std::shared_ptr&, long unsigned int)]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:262:52: required from here 262 | ImageSetDataPickleSuite::set_model_list( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 263 | obj, | ~~~~ 264 | boost::python::extract(models[3]), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 265 | &ImageSetData::set_scan); | ~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:232:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 232 | for (std::size_t i = 0; i < boost::python::len(models); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:236:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 236 | for (std::size_t i = 0; i < boost::python::len(indices); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:22, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/detector.h:25, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/to_from_dict.h:18, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/beam.cc:18: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:288:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 288 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:289:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 289 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:328:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 328 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:329:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 329 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:408:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 408 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:409:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 409 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:449:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 449 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:450:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 450 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h: In member function ‘void dxtbx::model::Panel::apply_untrusted_rectangle_mask(scitbx::af::ref >) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:435:36: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 435 | for (std::size_t y = y0; y < y1; ++y) { | ~~^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:436:38: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 436 | for (std::size_t x = x0; x < x1; ++x) { | ~~^~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:22, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/to_from_dict.h:20: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h: In function ‘scitbx::af::shared dxtbx::model::get_mod2pi_angles_in_range(scitbx::vec2, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h:89:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 89 | for (std::size_t i = 0; i < n_angles; ++i) { | ~~^~~~~~~~~~ g++ -o dxtbx/src/dxtbx/model/boost_python/crystal.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/base/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx -I/usr/include/python3.14 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/crystal.cc cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/vec3.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:17: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In constructor ‘dxtbx::model::Scan::Scan(scitbx::vec2, dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >&, int)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:148:44: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 148 | DXTBX_ASSERT(properties_table.size() == num_images_); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:148:7: note: in expansion of macro ‘DXTBX_ASSERT’ 148 | DXTBX_ASSERT(properties_table.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_properties(dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:242:37: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 242 | DXTBX_ASSERT(new_table.size() == num_images_); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:242:7: note: in expansion of macro ‘DXTBX_ASSERT’ 242 | DXTBX_ASSERT(new_table.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_oscillation(scitbx::vec2)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:397:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 397 | for (std::size_t i = 0; i < num_images_; ++i) { | ~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_exposure_times(scitbx::af::shared)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:411:42: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 411 | DXTBX_ASSERT(exposure_times.size() == num_images_); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:411:7: note: in expansion of macro ‘DXTBX_ASSERT’ 411 | DXTBX_ASSERT(exposure_times.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_epochs(const scitbx::af::shared&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:417:34: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 417 | DXTBX_ASSERT(epochs.size() == num_images_); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:417:7: note: in expansion of macro ‘DXTBX_ASSERT’ 417 | DXTBX_ASSERT(epochs.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::append(const dxtbx::model::Scan&, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:556:39: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 556 | DXTBX_ASSERT(properties_.size() == num_images_); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:556:7: note: in expansion of macro ‘DXTBX_ASSERT’ 556 | DXTBX_ASSERT(properties_.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/beam.cc: In function ‘void dxtbx::model::boost_python::beam_detail::Beam_set_s0_at_scan_points_from_tuple(dxtbx::model::Beam&, boost::python::tuple)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/beam.cc:209:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 209 | for (std::size_t i = 0; i < boost::python::len(l); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/beam.cc: In function ‘void dxtbx::model::boost_python::beam_detail::Beam_set_s0_at_scan_points_from_list(dxtbx::model::Beam&, boost::python::list)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/beam.cc:219:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 219 | for (std::size_t i = 0; i < boost::python::len(l); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/beam.cc: In static member function ‘static boost::python::tuple dxtbx::model::boost_python::PolychromaticBeamPickleSuite::getstate(boost::python::api::object)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/beam.cc:302:32: warning: unused variable ‘beam’ [-Wunused-variable] 302 | const PolychromaticBeam &beam = | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/beam.cc: In static member function ‘static void dxtbx::model::boost_python::PolychromaticBeamPickleSuite::setstate(boost::python::api::object, boost::python::tuple)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/beam.cc:308:26: warning: unused variable ‘beam’ [-Wunused-variable] 308 | PolychromaticBeam &beam = boost::python::extract(obj)(); | ^~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/masking/masking.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/masking/boost_python/ext.cc:3: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam()’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:551:18: warning: ‘scitbx::vec3 dxtbx::model::Beam::direction_’ [-Wreorder] 551 | vec3 direction_; | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:93:5: warning: when initialized here [-Wreorder] 93 | Beam() | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:126:5: warning: when initialized here [-Wreorder] 126 | Beam(vec3 direction, double wavelength) | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:165:5: warning: when initialized here [-Wreorder] 165 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:193:5: warning: when initialized here [-Wreorder] 193 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:227:5: warning: when initialized here [-Wreorder] 227 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In member function ‘virtual scitbx::af::shared > dxtbx::model::PolychromaticBeam::get_s0_at_scan_points() const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:760:52: warning: left operand of comma operator has no effect [-Wunused-value] 760 | return scitbx::af::shared >(1, (0., 0., 0.)); | ^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:760:60: warning: right operand of comma operator has no effect [-Wunused-value] 760 | return scitbx::af::shared >(1, (0., 0., 0.)); | ^~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:22, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/masking/masking.h:17: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:288:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 288 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:289:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 289 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:328:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 328 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:329:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 329 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:408:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 408 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:409:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 409 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:449:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 449 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:450:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 450 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h: In member function ‘void dxtbx::model::Panel::apply_untrusted_rectangle_mask(scitbx::af::ref >) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:435:36: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 435 | for (std::size_t y = y0; y < y1; ++y) { | ~~^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:436:38: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 436 | for (std::size_t x = x0; x < x1; ++x) { | ~~^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/masking/masking.h: In function ‘void dxtbx::masking::mask_untrusted_circle(scitbx::af::ref >, double, double, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/masking/masking.h:79:32: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 79 | for (std::size_t j = y0; j < y1; ++j) { | ~~^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/masking/masking.h:80:34: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 80 | for (std::size_t i = x0; i < x1; ++i) { | ~~^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/masking/masking.h: In function ‘void dxtbx::masking::mask_untrusted_polygon(scitbx::af::ref >, const scitbx::af::const_ref >&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/masking/masking.h:143:32: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 143 | for (std::size_t j = y0; j < y1; ++j) { | ~~^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/masking/masking.h:144:34: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 144 | for (std::size_t i = x0; i < x1; ++i) { | ~~^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/crystal.cc: In function ‘void dxtbx::model::boost_python::Crystal_set_A_at_scan_points_from_tuple(dxtbx::model::CrystalBase&, boost::python::tuple)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/crystal.cc:119:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 119 | for (std::size_t i = 0; i < boost::python::len(l); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/crystal.cc: In function ‘void dxtbx::model::boost_python::Crystal_set_A_at_scan_points_from_list(dxtbx::model::CrystalBase&, boost::python::list)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/crystal.cc:129:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 129 | for (std::size_t i = 0; i < boost::python::len(l); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/crystal.cc: In function ‘void dxtbx::model::boost_python::Crystal_set_B_covariance_from_tuple(dxtbx::model::CrystalBase&, boost::python::api::object)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/crystal.cc:141:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 141 | for (std::size_t i = 0; i < boost::python::len(obj); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~ g++ -o dxtbx/src/dxtbx/model/boost_python/detector.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/base/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx -I/usr/include/python3.14 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/virtual_panel.h:28, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel_data.h:17, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:22, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/detector.h:25, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:22: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam()’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:551:18: warning: ‘scitbx::vec3 dxtbx::model::Beam::direction_’ [-Wreorder] 551 | vec3 direction_; | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:93:5: warning: when initialized here [-Wreorder] 93 | Beam() | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:126:5: warning: when initialized here [-Wreorder] 126 | Beam(vec3 direction, double wavelength) | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:165:5: warning: when initialized here [-Wreorder] 165 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:193:5: warning: when initialized here [-Wreorder] 193 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:227:5: warning: when initialized here [-Wreorder] 227 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In member function ‘virtual scitbx::af::shared > dxtbx::model::PolychromaticBeam::get_s0_at_scan_points() const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:760:52: warning: left operand of comma operator has no effect [-Wunused-value] 760 | return scitbx::af::shared >(1, (0., 0., 0.)); | ^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:760:60: warning: right operand of comma operator has no effect [-Wunused-value] 760 | return scitbx::af::shared >(1, (0., 0., 0.)); | ^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:288:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 288 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:289:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 289 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:328:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 328 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:329:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 329 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:408:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 408 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:409:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 409 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:449:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 449 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:450:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 450 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h: In member function ‘void dxtbx::model::Panel::apply_untrusted_rectangle_mask(scitbx::af::ref >) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:435:36: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 435 | for (std::size_t y = y0; y < y1; ++y) { | ~~^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:436:38: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 436 | for (std::size_t x = x0; x < x1; ++x) { | ~~^~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:22, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/to_from_dict.h:20, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:23: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h: In function ‘scitbx::af::shared dxtbx::model::get_mod2pi_angles_in_range(scitbx::vec2, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h:89:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 89 | for (std::size_t i = 0; i < n_angles; ++i) { | ~~^~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/accessors/flex_grid.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/flex_types.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:18: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In constructor ‘dxtbx::model::Scan::Scan(scitbx::vec2, dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >&, int)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:148:44: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 148 | DXTBX_ASSERT(properties_table.size() == num_images_); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:148:7: note: in expansion of macro ‘DXTBX_ASSERT’ 148 | DXTBX_ASSERT(properties_table.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_properties(dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:242:37: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 242 | DXTBX_ASSERT(new_table.size() == num_images_); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:242:7: note: in expansion of macro ‘DXTBX_ASSERT’ 242 | DXTBX_ASSERT(new_table.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_oscillation(scitbx::vec2)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:397:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 397 | for (std::size_t i = 0; i < num_images_; ++i) { | ~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_exposure_times(scitbx::af::shared)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:411:42: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 411 | DXTBX_ASSERT(exposure_times.size() == num_images_); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:411:7: note: in expansion of macro ‘DXTBX_ASSERT’ 411 | DXTBX_ASSERT(exposure_times.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_epochs(const scitbx::af::shared&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:417:34: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 417 | DXTBX_ASSERT(epochs.size() == num_images_); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:417:7: note: in expansion of macro ‘DXTBX_ASSERT’ 417 | DXTBX_ASSERT(epochs.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::append(const dxtbx::model::Scan&, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:556:39: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 556 | DXTBX_ASSERT(properties_.size() == num_images_); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:556:7: note: in expansion of macro ‘DXTBX_ASSERT’ 556 | DXTBX_ASSERT(properties_.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc: In function ‘void dxtbx::model::boost_python::detector_detail::node_from_dict(boost::python::dict, dxtbx::model::Detector::Node*, boost::python::list, scitbx::af::ref)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:88:34: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 88 | DXTBX_ASSERT(used.size() == boost::python::len(panels)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:88:9: note: in expansion of macro ‘DXTBX_ASSERT’ 88 | DXTBX_ASSERT(used.size() == boost::python::len(panels)); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:89:26: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 89 | DXTBX_ASSERT(idx < boost::python::len(panels)); | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:89:9: note: in expansion of macro ‘DXTBX_ASSERT’ 89 | DXTBX_ASSERT(idx < boost::python::len(panels)); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:100:35: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 100 | for (std::size_t i = 0; i < boost::python::len(obj["children"]); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc: In function ‘dxtbx::model::Detector* dxtbx::model::boost_python::detector_detail::detector_from_dict(dxtbx::model::Detector*, boost::python::dict)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:124:35: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 124 | for (std::size_t i = 0; i < boost::python::len(hierarchy["children"]); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:134:35: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 134 | for (std::size_t i = 0; i < boost::python::len(panels); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc: In function ‘dxtbx::model::Detector* dxtbx::model::boost_python::detector_detail::detector_from_dict(dxtbx::model::Detector*, boost::python::dict, const dxtbx::format::Image&, const dxtbx::format::Image&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:158:35: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 158 | for (std::size_t i = 0; i < boost::python::len(hierarchy["children"]); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:168:35: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 168 | for (std::size_t i = 0; i < boost::python::len(panels); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc: In static member function ‘static void dxtbx::model::boost_python::detector_detail::DetectorPickleSuite::copy_node(dxtbx::model::Detector::Node::pointer, boost::python::dict, boost::python::list)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:228:35: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 228 | for (std::size_t i = 0; i < boost::python::len(node["children"]); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -o dxtbx/src/dxtbx/model/boost_python/experiment.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/base/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx -I/usr/include/python3.14 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment.cc cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o dxtbx/src/dxtbx/model/boost_python/experiment_list.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/base/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx -I/usr/include/python3.14 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/experiment.h:22, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/experiment_list.h:23, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc:20: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam()’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:551:18: warning: ‘scitbx::vec3 dxtbx::model::Beam::direction_’ [-Wreorder] 551 | vec3 direction_; | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:93:5: warning: when initialized here [-Wreorder] 93 | Beam() | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:126:5: warning: when initialized here [-Wreorder] 126 | Beam(vec3 direction, double wavelength) | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:165:5: warning: when initialized here [-Wreorder] 165 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:193:5: warning: when initialized here [-Wreorder] 193 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:227:5: warning: when initialized here [-Wreorder] 227 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In member function ‘virtual scitbx::af::shared > dxtbx::model::PolychromaticBeam::get_s0_at_scan_points() const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:760:52: warning: left operand of comma operator has no effect [-Wunused-value] 760 | return scitbx::af::shared >(1, (0., 0., 0.)); | ^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:760:60: warning: right operand of comma operator has no effect [-Wunused-value] 760 | return scitbx::af::shared >(1, (0., 0., 0.)); | ^~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:22, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/detector.h:25, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/experiment.h:23: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:288:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 288 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:289:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 289 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:328:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 328 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:329:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 329 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:408:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 408 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:409:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 409 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:449:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 449 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:450:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 450 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h: In member function ‘void dxtbx::model::Panel::apply_untrusted_rectangle_mask(scitbx::af::ref >) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:435:36: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 435 | for (std::size_t y = y0; y < y1; ++y) { | ~~^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:436:38: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 436 | for (std::size_t x = x0; x < x1; ++x) { | ~~^~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:22, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/experiment.h:25: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h: In function ‘scitbx::af::shared dxtbx::model::get_mod2pi_angles_in_range(scitbx::vec2, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h:89:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 89 | for (std::size_t i = 0; i < n_angles; ++i) { | ~~^~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/vec3.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/experiment_list.h:20: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In constructor ‘dxtbx::model::Scan::Scan(scitbx::vec2, dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >&, int)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:148:44: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 148 | DXTBX_ASSERT(properties_table.size() == num_images_); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:148:7: note: in expansion of macro ‘DXTBX_ASSERT’ 148 | DXTBX_ASSERT(properties_table.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_properties(dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:242:37: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 242 | DXTBX_ASSERT(new_table.size() == num_images_); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:242:7: note: in expansion of macro ‘DXTBX_ASSERT’ 242 | DXTBX_ASSERT(new_table.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_oscillation(scitbx::vec2)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:397:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 397 | for (std::size_t i = 0; i < num_images_; ++i) { | ~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_exposure_times(scitbx::af::shared)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:411:42: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 411 | DXTBX_ASSERT(exposure_times.size() == num_images_); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:411:7: note: in expansion of macro ‘DXTBX_ASSERT’ 411 | DXTBX_ASSERT(exposure_times.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_epochs(const scitbx::af::shared&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:417:34: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 417 | DXTBX_ASSERT(epochs.size() == num_images_); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:417:7: note: in expansion of macro ‘DXTBX_ASSERT’ 417 | DXTBX_ASSERT(epochs.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::append(const dxtbx::model::Scan&, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:556:39: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 556 | DXTBX_ASSERT(properties_.size() == num_images_); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:556:7: note: in expansion of macro ‘DXTBX_ASSERT’ 556 | DXTBX_ASSERT(properties_.size() == num_images_); | ^~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/experiment.h:22, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment.cc:17: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam()’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:551:18: warning: ‘scitbx::vec3 dxtbx::model::Beam::direction_’ [-Wreorder] 551 | vec3 direction_; | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:93:5: warning: when initialized here [-Wreorder] 93 | Beam() | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:126:5: warning: when initialized here [-Wreorder] 126 | Beam(vec3 direction, double wavelength) | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:165:5: warning: when initialized here [-Wreorder] 165 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:193:5: warning: when initialized here [-Wreorder] 193 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:227:5: warning: when initialized here [-Wreorder] 227 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In member function ‘virtual scitbx::af::shared > dxtbx::model::PolychromaticBeam::get_s0_at_scan_points() const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:760:52: warning: left operand of comma operator has no effect [-Wunused-value] 760 | return scitbx::af::shared >(1, (0., 0., 0.)); | ^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:760:60: warning: right operand of comma operator has no effect [-Wunused-value] 760 | return scitbx::af::shared >(1, (0., 0., 0.)); | ^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc: In function ‘dxtbx::model::ExperimentList* dxtbx::model::boost_python::make_experiment_list(boost::python::api::object)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc:30:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 30 | for (std::size_t i = 0; i < boost::python::len(items); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc: In function ‘void dxtbx::model::boost_python::experiment_list_setitem(dxtbx::model::ExperimentList&, int, dxtbx::model::Experiment)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc:174:11: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 174 | if (n >= self.size() || n < 0) { | ~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc: In function ‘dxtbx::model::Experiment& dxtbx::model::boost_python::experiment_list_getitem(dxtbx::model::ExperimentList&, int)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc:184:11: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 184 | if (n >= self.size() || n < 0) { | ~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc: In function ‘dxtbx::model::ExperimentList dxtbx::model::boost_python::experiment_list_getitem_slice(const dxtbx::model::ExperimentList&, boost::python::slice)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc:193:38: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘long int’ [-Wsign-compare] 193 | for (std::size_t i = as.start; i < as.stop && i < self.size(); i += as.step) { | ~~^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc: In function ‘void dxtbx::model::boost_python::experiment_list_delitem(dxtbx::model::ExperimentList&, int)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc:203:11: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 203 | if (n >= self.size() || n < 0) { | ~~^~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:22, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/detector.h:25, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/experiment.h:23: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:288:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 288 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:289:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 289 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:328:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 328 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:329:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 329 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:408:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 408 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:409:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 409 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:449:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 449 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:450:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 450 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h: In member function ‘void dxtbx::model::Panel::apply_untrusted_rectangle_mask(scitbx::af::ref >) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:435:36: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 435 | for (std::size_t y = y0; y < y1; ++y) { | ~~^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:436:38: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 436 | for (std::size_t x = x0; x < x1; ++x) { | ~~^~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:22, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/experiment.h:25: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h: In function ‘scitbx::af::shared dxtbx::model::get_mod2pi_angles_in_range(scitbx::vec2, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h:89:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 89 | for (std::size_t i = 0; i < n_angles; ++i) { | ~~^~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/vec3.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/experiment.h:19: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In constructor ‘dxtbx::model::Scan::Scan(scitbx::vec2, dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >&, int)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:148:44: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 148 | DXTBX_ASSERT(properties_table.size() == num_images_); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:148:7: note: in expansion of macro ‘DXTBX_ASSERT’ 148 | DXTBX_ASSERT(properties_table.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_properties(dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:242:37: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 242 | DXTBX_ASSERT(new_table.size() == num_images_); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:242:7: note: in expansion of macro ‘DXTBX_ASSERT’ 242 | DXTBX_ASSERT(new_table.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_oscillation(scitbx::vec2)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:397:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 397 | for (std::size_t i = 0; i < num_images_; ++i) { | ~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_exposure_times(scitbx::af::shared)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:411:42: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 411 | DXTBX_ASSERT(exposure_times.size() == num_images_); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:411:7: note: in expansion of macro ‘DXTBX_ASSERT’ 411 | DXTBX_ASSERT(exposure_times.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_epochs(const scitbx::af::shared&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:417:34: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 417 | DXTBX_ASSERT(epochs.size() == num_images_); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:417:7: note: in expansion of macro ‘DXTBX_ASSERT’ 417 | DXTBX_ASSERT(epochs.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::append(const dxtbx::model::Scan&, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:556:39: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 556 | DXTBX_ASSERT(properties_.size() == num_images_); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:556:7: note: in expansion of macro ‘DXTBX_ASSERT’ 556 | DXTBX_ASSERT(properties_.size() == num_images_); | ^~~~~~~~~~~~ g++ -o dxtbx/src/dxtbx/model/boost_python/goniometer.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/base/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx -I/usr/include/python3.14 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/goniometer.cc cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/to_from_dict.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/goniometer.cc:20: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam()’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:551:18: warning: ‘scitbx::vec3 dxtbx::model::Beam::direction_’ [-Wreorder] 551 | vec3 direction_; | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:93:5: warning: when initialized here [-Wreorder] 93 | Beam() | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:126:5: warning: when initialized here [-Wreorder] 126 | Beam(vec3 direction, double wavelength) | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:165:5: warning: when initialized here [-Wreorder] 165 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:193:5: warning: when initialized here [-Wreorder] 193 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:227:5: warning: when initialized here [-Wreorder] 227 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In member function ‘virtual scitbx::af::shared > dxtbx::model::PolychromaticBeam::get_s0_at_scan_points() const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:760:52: warning: left operand of comma operator has no effect [-Wunused-value] 760 | return scitbx::af::shared >(1, (0., 0., 0.)); | ^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:760:60: warning: right operand of comma operator has no effect [-Wunused-value] 760 | return scitbx::af::shared >(1, (0., 0., 0.)); | ^~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:22, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/detector.h:25, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/to_from_dict.h:18: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:288:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 288 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:289:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 289 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:328:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 328 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:329:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 329 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:408:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 408 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:409:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 409 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:449:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 449 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:450:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 450 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h: In member function ‘void dxtbx::model::Panel::apply_untrusted_rectangle_mask(scitbx::af::ref >) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:435:36: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 435 | for (std::size_t y = y0; y < y1; ++y) { | ~~^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:436:38: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 436 | for (std::size_t x = x0; x < x1; ++x) { | ~~^~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:22, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/to_from_dict.h:20: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h: In function ‘scitbx::af::shared dxtbx::model::get_mod2pi_angles_in_range(scitbx::vec2, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h:89:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 89 | for (std::size_t i = 0; i < n_angles; ++i) { | ~~^~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/vec3.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/goniometer.h:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/goniometer.cc:17: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In constructor ‘dxtbx::model::Scan::Scan(scitbx::vec2, dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >&, int)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:148:44: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 148 | DXTBX_ASSERT(properties_table.size() == num_images_); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:148:7: note: in expansion of macro ‘DXTBX_ASSERT’ 148 | DXTBX_ASSERT(properties_table.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_properties(dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:242:37: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 242 | DXTBX_ASSERT(new_table.size() == num_images_); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:242:7: note: in expansion of macro ‘DXTBX_ASSERT’ 242 | DXTBX_ASSERT(new_table.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_oscillation(scitbx::vec2)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:397:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 397 | for (std::size_t i = 0; i < num_images_; ++i) { | ~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_exposure_times(scitbx::af::shared)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:411:42: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 411 | DXTBX_ASSERT(exposure_times.size() == num_images_); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:411:7: note: in expansion of macro ‘DXTBX_ASSERT’ 411 | DXTBX_ASSERT(exposure_times.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_epochs(const scitbx::af::shared&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:417:34: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 417 | DXTBX_ASSERT(epochs.size() == num_images_); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:417:7: note: in expansion of macro ‘DXTBX_ASSERT’ 417 | DXTBX_ASSERT(epochs.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::append(const dxtbx::model::Scan&, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:556:39: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 556 | DXTBX_ASSERT(properties_.size() == num_images_); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:556:7: note: in expansion of macro ‘DXTBX_ASSERT’ 556 | DXTBX_ASSERT(properties_.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/goniometer.cc: In function ‘void dxtbx::model::boost_python::goniometer_detail::Goniometer_set_S_at_scan_points_from_tuple(dxtbx::model::Goniometer&, boost::python::tuple)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/goniometer.cc:79:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 79 | for (std::size_t i = 0; i < boost::python::len(l); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/goniometer.cc: In function ‘void dxtbx::model::boost_python::goniometer_detail::Goniometer_set_S_at_scan_points_from_list(dxtbx::model::Goniometer&, boost::python::list)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/goniometer.cc:89:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 89 | for (std::size_t i = 0; i < boost::python::len(l); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~ g++ -o dxtbx/src/dxtbx/model/boost_python/history.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/base/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx -I/usr/include/python3.14 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/history.cc cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o dxtbx/src/dxtbx/model/boost_python/kappa_goniometer.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/base/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx -I/usr/include/python3.14 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/kappa_goniometer.cc cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o dxtbx/src/dxtbx/model/boost_python/model_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/base/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx -I/usr/include/python3.14 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/model_ext.cc cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o dxtbx/src/dxtbx/model/boost_python/multi_axis_goniometer.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/base/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx -I/usr/include/python3.14 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/multi_axis_goniometer.cc cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o dxtbx/src/dxtbx/model/boost_python/panel.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/base/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx -I/usr/include/python3.14 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/panel.cc cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o dxtbx/src/dxtbx/model/boost_python/parallax_correction.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/base/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx -I/usr/include/python3.14 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/parallax_correction.cc cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o dxtbx/src/dxtbx/model/boost_python/pixel_to_millimeter.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/base/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx -I/usr/include/python3.14 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/pixel_to_millimeter.cc cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/to_from_dict.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/multi_axis_goniometer.cc:18: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam()’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:551:18: warning: ‘scitbx::vec3 dxtbx::model::Beam::direction_’ [-Wreorder] 551 | vec3 direction_; | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:93:5: warning: when initialized here [-Wreorder] 93 | Beam() | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:126:5: warning: when initialized here [-Wreorder] 126 | Beam(vec3 direction, double wavelength) | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:165:5: warning: when initialized here [-Wreorder] 165 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:193:5: warning: when initialized here [-Wreorder] 193 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:227:5: warning: when initialized here [-Wreorder] 227 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In member function ‘virtual scitbx::af::shared > dxtbx::model::PolychromaticBeam::get_s0_at_scan_points() const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:760:52: warning: left operand of comma operator has no effect [-Wunused-value] 760 | return scitbx::af::shared >(1, (0., 0., 0.)); | ^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:760:60: warning: right operand of comma operator has no effect [-Wunused-value] 760 | return scitbx::af::shared >(1, (0., 0., 0.)); | ^~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:22, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/detector.h:25, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/to_from_dict.h:18: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:288:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 288 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:289:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 289 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:328:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 328 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:329:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 329 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:408:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 408 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:409:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 409 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:449:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 449 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:450:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 450 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h: In member function ‘void dxtbx::model::Panel::apply_untrusted_rectangle_mask(scitbx::af::ref >) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:435:36: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 435 | for (std::size_t y = y0; y < y1; ++y) { | ~~^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:436:38: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 436 | for (std::size_t x = x0; x < x1; ++x) { | ~~^~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:22, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/to_from_dict.h:20: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h: In function ‘scitbx::af::shared dxtbx::model::get_mod2pi_angles_in_range(scitbx::vec2, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h:89:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 89 | for (std::size_t i = 0; i < n_angles; ++i) { | ~~^~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/vec3.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/goniometer.h:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/multi_axis_goniometer.cc:16: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In constructor ‘dxtbx::model::Scan::Scan(scitbx::vec2, dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >&, int)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:148:44: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 148 | DXTBX_ASSERT(properties_table.size() == num_images_); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:148:7: note: in expansion of macro ‘DXTBX_ASSERT’ 148 | DXTBX_ASSERT(properties_table.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_properties(dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:242:37: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 242 | DXTBX_ASSERT(new_table.size() == num_images_); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:242:7: note: in expansion of macro ‘DXTBX_ASSERT’ 242 | DXTBX_ASSERT(new_table.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_oscillation(scitbx::vec2)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:397:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 397 | for (std::size_t i = 0; i < num_images_; ++i) { | ~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_exposure_times(scitbx::af::shared)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:411:42: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 411 | DXTBX_ASSERT(exposure_times.size() == num_images_); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:411:7: note: in expansion of macro ‘DXTBX_ASSERT’ 411 | DXTBX_ASSERT(exposure_times.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_epochs(const scitbx::af::shared&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:417:34: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 417 | DXTBX_ASSERT(epochs.size() == num_images_); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:417:7: note: in expansion of macro ‘DXTBX_ASSERT’ 417 | DXTBX_ASSERT(epochs.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::append(const dxtbx::model::Scan&, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:556:39: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 556 | DXTBX_ASSERT(properties_.size() == num_images_); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:556:7: note: in expansion of macro ‘DXTBX_ASSERT’ 556 | DXTBX_ASSERT(properties_.size() == num_images_); | ^~~~~~~~~~~~ g++ -o dxtbx/src/dxtbx/model/boost_python/scan.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/base/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx -I/usr/include/python3.14 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/scan.cc cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/multi_axis_goniometer.cc: In function ‘T* dxtbx::model::boost_python::from_dict(boost::python::dict) [with T = dxtbx::model::MultiAxisGoniometer]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/multi_axis_goniometer.cc:105:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 105 | for (std::size_t i = 0; i < boost::python::len(l); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/virtual_panel.h:28, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel_data.h:17, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:22, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/panel.cc:20: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam()’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:551:18: warning: ‘scitbx::vec3 dxtbx::model::Beam::direction_’ [-Wreorder] 551 | vec3 direction_; | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:93:5: warning: when initialized here [-Wreorder] 93 | Beam() | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:126:5: warning: when initialized here [-Wreorder] 126 | Beam(vec3 direction, double wavelength) | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:165:5: warning: when initialized here [-Wreorder] 165 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:193:5: warning: when initialized here [-Wreorder] 193 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:227:5: warning: when initialized here [-Wreorder] 227 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In member function ‘virtual scitbx::af::shared > dxtbx::model::PolychromaticBeam::get_s0_at_scan_points() const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:760:52: warning: left operand of comma operator has no effect [-Wunused-value] 760 | return scitbx::af::shared >(1, (0., 0., 0.)); | ^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:760:60: warning: right operand of comma operator has no effect [-Wunused-value] 760 | return scitbx::af::shared >(1, (0., 0., 0.)); | ^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:288:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 288 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:289:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 289 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:328:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 328 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:329:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 329 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:408:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 408 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:409:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 409 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:449:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 449 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:450:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 450 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h: In member function ‘void dxtbx::model::Panel::apply_untrusted_rectangle_mask(scitbx::af::ref >) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:435:36: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 435 | for (std::size_t y = y0; y < y1; ++y) { | ~~^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:436:38: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 436 | for (std::size_t x = x0; x < x1; ++x) { | ~~^~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:22, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/to_from_dict.h:20, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/panel.cc:21: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h: In function ‘scitbx::af::shared dxtbx::model::get_mod2pi_angles_in_range(scitbx::vec2, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h:89:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 89 | for (std::size_t i = 0; i < n_angles; ++i) { | ~~^~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/accessors/flex_grid.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/flex_types.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/panel.cc:18: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In constructor ‘dxtbx::model::Scan::Scan(scitbx::vec2, dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >&, int)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:148:44: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 148 | DXTBX_ASSERT(properties_table.size() == num_images_); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:148:7: note: in expansion of macro ‘DXTBX_ASSERT’ 148 | DXTBX_ASSERT(properties_table.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_properties(dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:242:37: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 242 | DXTBX_ASSERT(new_table.size() == num_images_); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:242:7: note: in expansion of macro ‘DXTBX_ASSERT’ 242 | DXTBX_ASSERT(new_table.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_oscillation(scitbx::vec2)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:397:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 397 | for (std::size_t i = 0; i < num_images_; ++i) { | ~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_exposure_times(scitbx::af::shared)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:411:42: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 411 | DXTBX_ASSERT(exposure_times.size() == num_images_); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:411:7: note: in expansion of macro ‘DXTBX_ASSERT’ 411 | DXTBX_ASSERT(exposure_times.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_epochs(const scitbx::af::shared&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:417:34: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 417 | DXTBX_ASSERT(epochs.size() == num_images_); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:417:7: note: in expansion of macro ‘DXTBX_ASSERT’ 417 | DXTBX_ASSERT(epochs.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::append(const dxtbx::model::Scan&, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:556:39: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 556 | DXTBX_ASSERT(properties_.size() == num_images_); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:556:7: note: in expansion of macro ‘DXTBX_ASSERT’ 556 | DXTBX_ASSERT(properties_.size() == num_images_); | ^~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/virtual_panel.h:28, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel_data.h:17, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:22, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/pixel_to_millimeter.cc:14: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam()’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:551:18: warning: ‘scitbx::vec3 dxtbx::model::Beam::direction_’ [-Wreorder] 551 | vec3 direction_; | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:93:5: warning: when initialized here [-Wreorder] 93 | Beam() | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:126:5: warning: when initialized here [-Wreorder] 126 | Beam(vec3 direction, double wavelength) | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:165:5: warning: when initialized here [-Wreorder] 165 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:193:5: warning: when initialized here [-Wreorder] 193 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:227:5: warning: when initialized here [-Wreorder] 227 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In member function ‘virtual scitbx::af::shared > dxtbx::model::PolychromaticBeam::get_s0_at_scan_points() const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:760:52: warning: left operand of comma operator has no effect [-Wunused-value] 760 | return scitbx::af::shared >(1, (0., 0., 0.)); | ^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:760:60: warning: right operand of comma operator has no effect [-Wunused-value] 760 | return scitbx::af::shared >(1, (0., 0., 0.)); | ^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:288:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 288 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:289:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 289 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:328:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 328 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:329:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 329 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:408:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 408 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:409:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 409 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:449:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 449 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:450:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 450 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h: In member function ‘void dxtbx::model::Panel::apply_untrusted_rectangle_mask(scitbx::af::ref >) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:435:36: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 435 | for (std::size_t y = y0; y < y1; ++y) { | ~~^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:436:38: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 436 | for (std::size_t x = x0; x < x1; ++x) { | ~~^~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:22, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/scan.cc:19: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h: In function ‘scitbx::af::shared dxtbx::model::get_mod2pi_angles_in_range(scitbx::vec2, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h:89:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 89 | for (std::size_t i = 0; i < n_angles; ++i) { | ~~^~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/vec2.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:17: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In constructor ‘dxtbx::model::Scan::Scan(scitbx::vec2, dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >&, int)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:148:44: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 148 | DXTBX_ASSERT(properties_table.size() == num_images_); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:148:7: note: in expansion of macro ‘DXTBX_ASSERT’ 148 | DXTBX_ASSERT(properties_table.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_properties(dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:242:37: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 242 | DXTBX_ASSERT(new_table.size() == num_images_); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:242:7: note: in expansion of macro ‘DXTBX_ASSERT’ 242 | DXTBX_ASSERT(new_table.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_oscillation(scitbx::vec2)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:397:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 397 | for (std::size_t i = 0; i < num_images_; ++i) { | ~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_exposure_times(scitbx::af::shared)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:411:42: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 411 | DXTBX_ASSERT(exposure_times.size() == num_images_); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:411:7: note: in expansion of macro ‘DXTBX_ASSERT’ 411 | DXTBX_ASSERT(exposure_times.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_epochs(const scitbx::af::shared&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:417:34: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 417 | DXTBX_ASSERT(epochs.size() == num_images_); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:417:7: note: in expansion of macro ‘DXTBX_ASSERT’ 417 | DXTBX_ASSERT(epochs.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::append(const dxtbx::model::Scan&, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:556:39: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 556 | DXTBX_ASSERT(properties_.size() == num_images_); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:556:7: note: in expansion of macro ‘DXTBX_ASSERT’ 556 | DXTBX_ASSERT(properties_.size() == num_images_); | ^~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/to_from_dict.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/scan.cc:20: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam()’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:551:18: warning: ‘scitbx::vec3 dxtbx::model::Beam::direction_’ [-Wreorder] 551 | vec3 direction_; | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:93:5: warning: when initialized here [-Wreorder] 93 | Beam() | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:126:5: warning: when initialized here [-Wreorder] 126 | Beam(vec3 direction, double wavelength) | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:165:5: warning: when initialized here [-Wreorder] 165 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:193:5: warning: when initialized here [-Wreorder] 193 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:227:5: warning: when initialized here [-Wreorder] 227 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In member function ‘virtual scitbx::af::shared > dxtbx::model::PolychromaticBeam::get_s0_at_scan_points() const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:760:52: warning: left operand of comma operator has no effect [-Wunused-value] 760 | return scitbx::af::shared >(1, (0., 0., 0.)); | ^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:760:60: warning: right operand of comma operator has no effect [-Wunused-value] 760 | return scitbx::af::shared >(1, (0., 0., 0.)); | ^~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:22, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/detector.h:25, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/to_from_dict.h:18: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:288:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 288 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:289:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 289 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:328:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 328 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:329:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 329 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:408:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 408 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:409:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 409 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:449:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 449 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:450:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 450 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h: In member function ‘void dxtbx::model::Panel::apply_untrusted_rectangle_mask(scitbx::af::ref >) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:435:36: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 435 | for (std::size_t y = y0; y < y1; ++y) { | ~~^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:436:38: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 436 | for (std::size_t x = x0; x < x1; ++x) { | ~~^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/scan.cc: In static member function ‘static void dxtbx::model::boost_python::ScanPickleSuite::setstate(dxtbx::model::Scan&, boost::python::tuple)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/scan.cc:162:41: warning: comparison of integer expressions of different signedness: ‘boost::python::ssize_t’ {aka ‘long int’} and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 162 | DXTBX_ASSERT(len(properties_dict) == ncols); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/scan.cc:162:7: note: in expansion of macro ‘DXTBX_ASSERT’ 162 | DXTBX_ASSERT(len(properties_dict) == ncols); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/scan.cc: In function ‘boost::python::dict dxtbx::model::boost_python::MaptoPythonDict(dxtbx::model::ExpImgRangeMap)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/scan.cc:187:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 187 | for (int k = 0; k < val.size(); ++k) { | ~~^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/scan.cc: In function ‘boost::python::list dxtbx::model::boost_python::get_valid_image_ranges(dxtbx::model::Scan&, std::string)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/scan.cc:374:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 374 | for (int k = 0; k < ranges.size(); ++k) { | ~~^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:24: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/array_family/flex_table_suite.h: In instantiation of ‘T* dxtbx::af::flex_table_suite::make_flex_table(boost::python::list) [with T = dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/array_family/flex_table_suite.h:1233:42: required from ‘static dxtbx::af::flex_table_suite::flex_table_wrapper::class_type dxtbx::af::flex_table_suite::flex_table_wrapper::wrap(const char*) [with T = dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >; class_type = boost::python::class_, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >, boost::python::detail::not_specified, boost::python::detail::not_specified, boost::python::detail::not_specified>]’ 1233 | .def("__init__", make_constructor(&make_flex_table)) | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/scan.cc:177:29: required from ‘static dxtbx::model::boost_python::scan_property_table_wrapper::class_type dxtbx::model::boost_python::scan_property_table_wrapper::wrap(const char*) [with T = dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >; class_type = boost::python::class_, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >, boost::python::detail::not_specified, boost::python::detail::not_specified, boost::python::detail::not_specified>]’ 177 | return base_type::wrap(name); | ~~~~~~~~~~~~~~~^~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/scan.cc:584:72: required from here 584 | scan_property_table_wrapper >::wrap( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 585 | "scan_property_table"); | ~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/array_family/flex_table_suite.h:416:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 416 | for (std::size_t i = 0; i < len(columns); ++i) { | ~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/array_family/flex_table_suite.h: In instantiation of ‘void dxtbx::af::flex_table_suite::setitem_row(T&, typename T::size_type, boost::python::dict) [with T = dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >; typename T::size_type = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/array_family/flex_table_suite.h:1252:13: required from ‘static dxtbx::af::flex_table_suite::flex_table_wrapper::class_type dxtbx::af::flex_table_suite::flex_table_wrapper::wrap(const char*) [with T = dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >; class_type = boost::python::class_, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >, boost::python::detail::not_specified, boost::python::detail::not_specified, boost::python::detail::not_specified>]’ 1232 | flex_table_class.def(init()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1233 | .def("__init__", make_constructor(&make_flex_table)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1234 | .def("types", &types) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1235 | .def("has_key", &has_key) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1236 | .def("clear", &flex_table_type::clear) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1237 | .def("empty", &flex_table_type::empty) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1238 | .def("resize", &flex_table_type::resize) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1239 | .def("append", &append) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1240 | .def("insert", &insert) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1241 | .def("extend", &extend) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1242 | .def("update", &update) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1243 | .def("nrows", &flex_table_type::nrows) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1244 | .def("ncols", &flex_table_type::ncols) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1245 | .def("is_consistent", &flex_table_type::is_consistent) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1246 | .def("size", &flex_table_type::size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1247 | .def("__len__", &flex_table_type::size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1248 | .def("__contains__", &has_key) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1249 | .def("__getitem__", &getitem_column) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1250 | .def("__getitem__", &getitem_row) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1251 | .def("__getitem__", &getitem_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1252 | .def("__setitem__", &setitem_row) | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/scan.cc:177:29: required from ‘static dxtbx::model::boost_python::scan_property_table_wrapper::class_type dxtbx::model::boost_python::scan_property_table_wrapper::wrap(const char*) [with T = dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >; class_type = boost::python::class_, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >, boost::python::detail::not_specified, boost::python::detail::not_specified, boost::python::detail::not_specified>]’ 177 | return base_type::wrap(name); | ~~~~~~~~~~~~~~~^~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/scan.cc:584:72: required from here 584 | scan_property_table_wrapper >::wrap( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 585 | "scan_property_table"); | ~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/array_family/flex_table_suite.h:525:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 525 | for (std::size_t i = 0; i < len(row); ++i) { | ~~^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/array_family/flex_table_suite.h: In instantiation of ‘T dxtbx::af::flex_table_suite::select_cols_tuple(const T&, boost::python::tuple) [with T = dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/array_family/flex_table_suite.h:1265:13: required from ‘static dxtbx::af::flex_table_suite::flex_table_wrapper::class_type dxtbx::af::flex_table_suite::flex_table_wrapper::wrap(const char*) [with T = dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >; class_type = boost::python::class_, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >, boost::python::detail::not_specified, boost::python::detail::not_specified, boost::python::detail::not_specified>]’ 1232 | flex_table_class.def(init()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1233 | .def("__init__", make_constructor(&make_flex_table)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1234 | .def("types", &types) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1235 | .def("has_key", &has_key) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1236 | .def("clear", &flex_table_type::clear) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1237 | .def("empty", &flex_table_type::empty) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1238 | .def("resize", &flex_table_type::resize) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1239 | .def("append", &append) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1240 | .def("insert", &insert) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1241 | .def("extend", &extend) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1242 | .def("update", &update) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1243 | .def("nrows", &flex_table_type::nrows) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1244 | .def("ncols", &flex_table_type::ncols) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1245 | .def("is_consistent", &flex_table_type::is_consistent) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1246 | .def("size", &flex_table_type::size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1247 | .def("__len__", &flex_table_type::size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1248 | .def("__contains__", &has_key) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1249 | .def("__getitem__", &getitem_column) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1250 | .def("__getitem__", &getitem_row) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1251 | .def("__getitem__", &getitem_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1252 | .def("__setitem__", &setitem_row) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1253 | .def("__setitem__", &setitem_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1254 | .def("__delitem__", &delitem_column) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1255 | .def("__delitem__", &delitem_row) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1256 | .def("__delitem__", &delitem_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1257 | .def("__iter__", make_iterator >::range()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1258 | .def("cols", make_iterator >::range()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1259 | .def("items", make_iterator >::range()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1260 | .def("rows", make_iterator >::range()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1261 | .def("keys", make_iterator >::range()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1262 | .def("select", &select_rows_index) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1263 | .def("select", &select_rows_flags) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1264 | .def("select", &select_cols_keys) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1265 | .def("select", &select_cols_tuple) | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/scan.cc:177:29: required from ‘static dxtbx::model::boost_python::scan_property_table_wrapper::class_type dxtbx::model::boost_python::scan_property_table_wrapper::wrap(const char*) [with T = dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >; class_type = boost::python::class_, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >, boost::python::detail::not_specified, boost::python::detail::not_specified, boost::python::detail::not_specified>]’ 177 | return base_type::wrap(name); | ~~~~~~~~~~~~~~~^~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/scan.cc:584:72: required from here 584 | scan_property_table_wrapper >::wrap( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 585 | "scan_property_table"); | ~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/array_family/flex_table_suite.h:747:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 747 | for (std::size_t i = 0; i < len(keys); ++i) { | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/array_family/flex_table_suite.h: In instantiation of ‘void dxtbx::af::flex_table_suite::set_selected_cols_tuple(T&, boost::python::tuple, const T&) [with T = dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/array_family/flex_table_suite.h:1269:13: required from ‘static dxtbx::af::flex_table_suite::flex_table_wrapper::class_type dxtbx::af::flex_table_suite::flex_table_wrapper::wrap(const char*) [with T = dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >; class_type = boost::python::class_, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >, boost::python::detail::not_specified, boost::python::detail::not_specified, boost::python::detail::not_specified>]’ 1232 | flex_table_class.def(init()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1233 | .def("__init__", make_constructor(&make_flex_table)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1234 | .def("types", &types) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1235 | .def("has_key", &has_key) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1236 | .def("clear", &flex_table_type::clear) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1237 | .def("empty", &flex_table_type::empty) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1238 | .def("resize", &flex_table_type::resize) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1239 | .def("append", &append) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1240 | .def("insert", &insert) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1241 | .def("extend", &extend) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1242 | .def("update", &update) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1243 | .def("nrows", &flex_table_type::nrows) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1244 | .def("ncols", &flex_table_type::ncols) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1245 | .def("is_consistent", &flex_table_type::is_consistent) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1246 | .def("size", &flex_table_type::size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1247 | .def("__len__", &flex_table_type::size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1248 | .def("__contains__", &has_key) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1249 | .def("__getitem__", &getitem_column) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1250 | .def("__getitem__", &getitem_row) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1251 | .def("__getitem__", &getitem_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1252 | .def("__setitem__", &setitem_row) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1253 | .def("__setitem__", &setitem_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1254 | .def("__delitem__", &delitem_column) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1255 | .def("__delitem__", &delitem_row) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1256 | .def("__delitem__", &delitem_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1257 | .def("__iter__", make_iterator >::range()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1258 | .def("cols", make_iterator >::range()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1259 | .def("items", make_iterator >::range()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1260 | .def("rows", make_iterator >::range()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1261 | .def("keys", make_iterator >::range()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1262 | .def("select", &select_rows_index) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1263 | .def("select", &select_rows_flags) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1264 | .def("select", &select_cols_keys) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1265 | .def("select", &select_cols_tuple) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1266 | .def("set_selected", &set_selected_rows_index) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1267 | .def("set_selected", &set_selected_rows_flags) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1268 | .def("set_selected", &set_selected_cols_keys) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1269 | .def("set_selected", &set_selected_cols_tuple) | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/scan.cc:177:29: required from ‘static dxtbx::model::boost_python::scan_property_table_wrapper::class_type dxtbx::model::boost_python::scan_property_table_wrapper::wrap(const char*) [with T = dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >; class_type = boost::python::class_, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >, boost::python::detail::not_specified, boost::python::detail::not_specified, boost::python::detail::not_specified>]’ 177 | return base_type::wrap(name); | ~~~~~~~~~~~~~~~^~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/scan.cc:584:72: required from here 584 | scan_property_table_wrapper >::wrap( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 585 | "scan_property_table"); | ~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/array_family/flex_table_suite.h:838:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 838 | for (std::size_t i = 0; i < len(keys); ++i) { | ~~^~~~~~~~~~~ g++ -o dxtbx/src/dxtbx/model/boost_python/scan_helpers.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/base/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx -I/usr/include/python3.14 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/scan_helpers.cc /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/array_family/flex_table_suite.h: In instantiation of ‘void dxtbx::af::flex_table_suite::del_selected_cols_tuple(T&, boost::python::tuple) [with T = dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/array_family/flex_table_suite.h:1273:13: required from ‘static dxtbx::af::flex_table_suite::flex_table_wrapper::class_type dxtbx::af::flex_table_suite::flex_table_wrapper::wrap(const char*) [with T = dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >; class_type = boost::python::class_, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >, boost::python::detail::not_specified, boost::python::detail::not_specified, boost::python::detail::not_specified>]’ 1232 | flex_table_class.def(init()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1233 | .def("__init__", make_constructor(&make_flex_table)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1234 | .def("types", &types) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1235 | .def("has_key", &has_key) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1236 | .def("clear", &flex_table_type::clear) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1237 | .def("empty", &flex_table_type::empty) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1238 | .def("resize", &flex_table_type::resize) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1239 | .def("append", &append) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1240 | .def("insert", &insert) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1241 | .def("extend", &extend) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1242 | .def("update", &update) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1243 | .def("nrows", &flex_table_type::nrows) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1244 | .def("ncols", &flex_table_type::ncols) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1245 | .def("is_consistent", &flex_table_type::is_consistent) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1246 | .def("size", &flex_table_type::size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1247 | .def("__len__", &flex_table_type::size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1248 | .def("__contains__", &has_key) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1249 | .def("__getitem__", &getitem_column) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1250 | .def("__getitem__", &getitem_row) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1251 | .def("__getitem__", &getitem_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1252 | .def("__setitem__", &setitem_row) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1253 | .def("__setitem__", &setitem_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1254 | .def("__delitem__", &delitem_column) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1255 | .def("__delitem__", &delitem_row) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1256 | .def("__delitem__", &delitem_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1257 | .def("__iter__", make_iterator >::range()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1258 | .def("cols", make_iterator >::range()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1259 | .def("items", make_iterator >::range()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1260 | .def("rows", make_iterator >::range()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1261 | .def("keys", make_iterator >::range()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1262 | .def("select", &select_rows_index) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1263 | .def("select", &select_rows_flags) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1264 | .def("select", &select_cols_keys) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1265 | .def("select", &select_cols_tuple) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1266 | .def("set_selected", &set_selected_rows_index) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1267 | .def("set_selected", &set_selected_rows_flags) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1268 | .def("set_selected", &set_selected_cols_keys) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1269 | .def("set_selected", &set_selected_cols_tuple) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1270 | .def("del_selected", &del_selected_rows_index) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1271 | .def("del_selected", &del_selected_rows_flags) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1272 | .def("del_selected", &del_selected_cols_keys) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1273 | .def("del_selected", &del_selected_cols_tuple) | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/scan.cc:177:29: required from ‘static dxtbx::model::boost_python::scan_property_table_wrapper::class_type dxtbx::model::boost_python::scan_property_table_wrapper::wrap(const char*) [with T = dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >; class_type = boost::python::class_, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >, boost::python::detail::not_specified, boost::python::detail::not_specified, boost::python::detail::not_specified>]’ 177 | return base_type::wrap(name); | ~~~~~~~~~~~~~~~^~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/scan.cc:584:72: required from here 584 | scan_property_table_wrapper >::wrap( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 585 | "scan_property_table"); | ~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/array_family/flex_table_suite.h:890:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 890 | for (std::size_t i = 0; i < len(keys); ++i) { | ~~^~~~~~~~~~~ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/scan_helpers.cc:16: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h: In function ‘scitbx::af::shared dxtbx::model::get_mod2pi_angles_in_range(scitbx::vec2, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h:89:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 89 | for (std::size_t i = 0; i < n_angles; ++i) { | ~~^~~~~~~~~~ g++ -o dxtbx/src/dxtbx/model/boost_python/spectrum.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/base/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx -I/usr/include/python3.14 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/spectrum.cc cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/libcbf-private.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libcbf-private.so.0 cbflib_adaptbx/detectors/mar_adaptor.o cbflib_adaptbx/detectors/cbf_adaptor.o cbflib_adaptbx/detectors/cbf_byte_offset_optimized.o cbflib_adaptbx/detectors/buffer_based_service.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lboost_thread -lhdf5 -lcbf Create symlinks for: 'lib/libcbf-private.so.0.0.1' 'lib/libcbf-private.so.0'->'lib/libcbf-private.so.0.0.1' 'lib/libcbf-private.so'->'lib/libcbf-private.so.0.0.1' g++ -o exe_dev/cbflib.tst_memory -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread cbflib_adaptbx/detectors/tst_memory.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lcbf -lcbf-private -lm -lhdf5 g++ -o exe_dev/cctbx.convert_ccp4_symop_lib -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread cctbx/examples/convert_ccp4_symop_lib.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx_sgtbx_asu -lcctbx -lboost_thread -lm g++ -o exe_dev/cctbx.find_distances -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread cctbx/examples/find_distances.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx_sgtbx_asu -lcctbx -lboost_thread -lm g++ -o exe_dev/cctbx.getting_started -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread cctbx/examples/getting_started.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx_sgtbx_asu -lcctbx -lboost_thread -lm g++ -o exe_dev/cctbx.lattice_symmetry -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread cctbx/examples/lattice_symmetry.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx_sgtbx_asu -lcctbx -lboost_thread -lm g++ -o exe_dev/cctbx.sym_equiv_sites -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread cctbx/examples/sym_equiv_sites.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx_sgtbx_asu -lcctbx -lboost_thread -lm g++ -o exe_dev/cctbx.sys_abs_equiv_space_groups -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread cctbx/examples/sys_abs_equiv_space_groups.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx_sgtbx_asu -lcctbx -lboost_thread -lm g++ -o fable/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/font_ucs_10x20.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 gltbx/font_ucs_10x20.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/to_from_dict.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/spectrum.cc:10: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam()’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:551:18: warning: ‘scitbx::vec3 dxtbx::model::Beam::direction_’ [-Wreorder] 551 | vec3 direction_; | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:93:5: warning: when initialized here [-Wreorder] 93 | Beam() | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:126:5: warning: when initialized here [-Wreorder] 126 | Beam(vec3 direction, double wavelength) | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:165:5: warning: when initialized here [-Wreorder] 165 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:193:5: warning: when initialized here [-Wreorder] 193 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:227:5: warning: when initialized here [-Wreorder] 227 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In member function ‘virtual scitbx::af::shared > dxtbx::model::PolychromaticBeam::get_s0_at_scan_points() const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:760:52: warning: left operand of comma operator has no effect [-Wunused-value] 760 | return scitbx::af::shared >(1, (0., 0., 0.)); | ^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:760:60: warning: right operand of comma operator has no effect [-Wunused-value] 760 | return scitbx::af::shared >(1, (0., 0., 0.)); | ^~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:22, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/detector.h:25, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/to_from_dict.h:18: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:288:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 288 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:289:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 289 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:328:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 328 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:329:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 329 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:408:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 408 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:409:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 409 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:449:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 449 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:450:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 450 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h: In member function ‘void dxtbx::model::Panel::apply_untrusted_rectangle_mask(scitbx::af::ref >) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:435:36: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 435 | for (std::size_t y = y0; y < y1; ++y) { | ~~^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:436:38: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 436 | for (std::size_t x = x0; x < x1; ++x) { | ~~^~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:22, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/to_from_dict.h:20: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h: In function ‘scitbx::af::shared dxtbx::model::get_mod2pi_angles_in_range(scitbx::vec2, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h:89:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 89 | for (std::size_t i = 0; i < n_angles; ++i) { | ~~^~~~~~~~~~ g++ -o gltbx/font_ucs_8x13.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 gltbx/font_ucs_8x13.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:31, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/spectrum.h:9, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/spectrum.cc:9: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In constructor ‘dxtbx::model::Scan::Scan(scitbx::vec2, dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >&, int)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:148:44: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 148 | DXTBX_ASSERT(properties_table.size() == num_images_); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:148:7: note: in expansion of macro ‘DXTBX_ASSERT’ 148 | DXTBX_ASSERT(properties_table.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_properties(dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:242:37: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 242 | DXTBX_ASSERT(new_table.size() == num_images_); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:242:7: note: in expansion of macro ‘DXTBX_ASSERT’ 242 | DXTBX_ASSERT(new_table.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_oscillation(scitbx::vec2)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:397:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 397 | for (std::size_t i = 0; i < num_images_; ++i) { | ~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_exposure_times(scitbx::af::shared)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:411:42: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 411 | DXTBX_ASSERT(exposure_times.size() == num_images_); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:411:7: note: in expansion of macro ‘DXTBX_ASSERT’ 411 | DXTBX_ASSERT(exposure_times.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_epochs(const scitbx::af::shared&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:417:34: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 417 | DXTBX_ASSERT(epochs.size() == num_images_); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:417:7: note: in expansion of macro ‘DXTBX_ASSERT’ 417 | DXTBX_ASSERT(epochs.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::append(const dxtbx::model::Scan&, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:556:39: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 556 | DXTBX_ASSERT(properties_.size() == num_images_); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:556:7: note: in expansion of macro ‘DXTBX_ASSERT’ 556 | DXTBX_ASSERT(properties_.size() == num_images_); | ^~~~~~~~~~~~ g++ -o gltbx/font_ucs_9x15.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 gltbx/font_ucs_9x15.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/fonts_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/gltbx/fonts_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/ext.cpp:5: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/utils/equivalence.hpp: In member function ‘void fem::utils::equivalence::array_alignment::infer_diffs0_from_diff_matrix()’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/utils/equivalence.hpp:93:28: warning: comparison of integer expressions of different signedness: ‘const fem::ssize_t’ {aka ‘const long int’} and ‘fem::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 93 | if (c0e[0] == i0) { | ~~~~~~~^~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/utils/string_to_double.hpp:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/utils/string_to_double_fmt.hpp:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/ext.cpp:6: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/utils/simple_streams.hpp: In member function ‘virtual void fem::utils::simple_ostream_to_char_ptr_and_size::put(char)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/utils/simple_streams.hpp:63:13: warning: comparison of integer expressions of different signedness: ‘fem::ssize_t’ {aka ‘long int’} and ‘fem::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 63 | if (i < sz) s[i++] = c; | ~~^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/utils/string_to_double.hpp: In member function ‘void fem::utils::string_to_double::convert(fem::utils::simple_istream&, unsigned int, int)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/utils/string_to_double.hpp:115:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const unsigned int’ [-Wsign-compare] 115 | if (dexp <= ad_hoc_limits::max_digit_count) { | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/utils/string.hpp:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/str_ref.hpp:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/format.hpp:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/ext.cpp:4: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/ext.cpp: In function ‘unsigned int fable::ext::get_code_stop(const boost::python::api::object&, int)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/ext.cpp:24:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 24 | TBXX_ASSERT(stop <= len_code); | ~~~~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/tbxx/error_utils.hpp:59:9: note: in definition of macro ‘TBXX_ASSERT’ 59 | if (!(condition)) { \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/ext.cpp: In function ‘int fable::ext::floating_point_scan_after_dot(const boost::python::api::object&, unsigned int, int)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/ext.cpp:71:11: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 71 | if (i < code_stop) { | ~~^~~~~~~~~~~ g++ -o gltbx/gl_defines_00_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 gltbx/gl_defines_00_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/gl_defines_01_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 gltbx/gl_defines_01_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/gl_defines_02_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 gltbx/gl_defines_02_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/gl_defines_03_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 gltbx/gl_defines_03_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:23: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/array_family/flex_table.h: In member function ‘void dxtbx::af::flex_table::insert_visitor::operator()(T&) const [with T = scitbx::af::shared >; VarientType = boost::variant, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > >]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/array_family/flex_table.h:218:17: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] 218 | v.insert(v.begin() + pos, n, typename T::value_type()); | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:307, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:18: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/detail/push_back_etc.h:124:12: note: by argument 4 of type ‘const scitbx::vec2&’ to ‘void scitbx::af::shared_plain::insert(ElementType*, const size_type&, const ElementType&) [with ElementType = scitbx::vec2]’ declared here 124 | void insert(ElementType* pos, size_type const& n, ElementType const& x) { | ^~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/array_family/flex_table.h:218:50: note: ‘’ declared here 218 | v.insert(v.begin() + pos, n, typename T::value_type()); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/array_family/flex_table.h: In member function ‘void dxtbx::af::flex_table::insert_visitor::operator()(T&) const [with T = scitbx::af::shared >; VarientType = boost::variant, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > >]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/array_family/flex_table.h:218:17: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] 218 | v.insert(v.begin() + pos, n, typename T::value_type()); | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/detail/push_back_etc.h:124:12: note: by argument 4 of type ‘const scitbx::vec3&’ to ‘void scitbx::af::shared_plain::insert(ElementType*, const size_type&, const ElementType&) [with ElementType = scitbx::vec3]’ declared here 124 | void insert(ElementType* pos, size_type const& n, ElementType const& x) { | ^~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/array_family/flex_table.h:218:50: note: ‘’ declared here 218 | v.insert(v.begin() + pos, n, typename T::value_type()); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/array_family/flex_table_suite.h: In function ‘void dxtbx::af::flex_table_suite::type_appender::operator()(U) [with U = scitbx::af::shared >]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/array_family/flex_table_suite.h:905:54: warning: ‘a’ may be used uninitialized [-Wmaybe-uninitialized] 905 | type_list.append(object(handle<>(PyObject_Type(object(a).ptr())))); | ^~~~~~~~~ In file included from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/scan.cc:11: /usr/include/boost/python/object_core.hpp:246:16: note: by argument 2 of type ‘const scitbx::vec2&’ to ‘boost::python::api::object::object(const T&) [with T = scitbx::vec2]’ declared here 246 | explicit object(T const& x) | ^~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/array_family/flex_table_suite.h:904:30: note: ‘a’ declared here 904 | typename U::value_type a = typename U::value_type(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/array_family/flex_table_suite.h: In function ‘void dxtbx::af::flex_table_suite::type_appender::operator()(U) [with U = scitbx::af::shared >]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/array_family/flex_table_suite.h:905:54: warning: ‘a’ may be used uninitialized [-Wmaybe-uninitialized] 905 | type_list.append(object(handle<>(PyObject_Type(object(a).ptr())))); | ^~~~~~~~~ /usr/include/boost/python/object_core.hpp:246:16: note: by argument 2 of type ‘const scitbx::vec3&’ to ‘boost::python::api::object::object(const T&) [with T = scitbx::vec3]’ declared here 246 | explicit object(T const& x) | ^~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/array_family/flex_table_suite.h:904:30: note: ‘a’ declared here 904 | typename U::value_type a = typename U::value_type(); | ^ g++ -o gltbx/gl_defines_04_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 gltbx/gl_defines_04_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/gl_defines_05_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 gltbx/gl_defines_05_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/gl_defines_06_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 gltbx/gl_defines_06_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/gl_defines_07_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 gltbx/gl_defines_07_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/gl_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/gltbx/gl_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/gl_functions_00_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 gltbx/gl_functions_00_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/gl_functions_01_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 gltbx/gl_functions_01_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/gl_functions_02_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 gltbx/gl_functions_02_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/gl_functions_03_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 gltbx/gl_functions_03_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/gl_functions_04_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 gltbx/gl_functions_04_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/gl_functions_05_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 gltbx/gl_functions_05_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/gl_functions_06_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 gltbx/gl_functions_06_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/gl_functions_07_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 gltbx/gl_functions_07_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/gl_functions_08_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 gltbx/gl_functions_08_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/gl_functions_09_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 gltbx/gl_functions_09_bpl.cpp g++ -o gltbx/gl_functions_10_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 gltbx/gl_functions_10_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/gl_functions_11_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 gltbx/gl_functions_11_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/gl_functions_12_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 gltbx/gl_functions_12_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/gl_functions_13_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 gltbx/gl_functions_13_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/gl_functions_14_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 gltbx/gl_functions_14_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/gl_functions_15_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 gltbx/gl_functions_15_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/glu_defines_00_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 gltbx/glu_defines_00_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/glu_defines_01_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 gltbx/glu_defines_01_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/glu_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/gltbx/glu_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/glu_functions_00_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 gltbx/glu_functions_00_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/glu_functions_01_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 gltbx/glu_functions_01_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/glu_functions_02_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 gltbx/glu_functions_02_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/glu_functions_03_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 gltbx/glu_functions_03_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/quadrics_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/gltbx/quadrics_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/util_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/gltbx/util_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/viewer_utils_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/gltbx/viewer_utils_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/ccp4_map/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -DMSETS=32 -DMXTALS=32 -DMCOLUMNS=128 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/ccp4_map/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/cif/boost_python/cif_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/cif/boost_python/cif_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/detectors/bruker.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/detectors/bruker.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/detectors/bruker_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/detectors/bruker_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/ccp4_map/ext.cpp: In function ‘void iotbx::ccp4_map::write_ccp4_map_set_grid(const std::string&, const cctbx::uctbx::unit_cell&, const cctbx::sgtbx::space_group&, const scitbx::af::int3&, const scitbx::af::const_ref >&, const scitbx::af::const_ref >&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/ccp4_map/ext.cpp:178:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 178 | for (int i = 0; i < labels.size(); i++) { | ~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/ccp4_map/ext.cpp:213:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 213 | for (int i = 0; i < data_ref.accessor()[0]; i++) { /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/ccp4_map/ext.cpp:215:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 215 | for (int j = 0; j < data_ref.accessor()[1]; j++) { /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/ccp4_map/ext.cpp:216:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 216 | for (int k = 0; k < data_ref.accessor()[2]; k++) { /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/ccp4_map/ext.cpp: In function ‘void iotbx::ccp4_map::write_ccp4_map_box(const std::string&, const cctbx::uctbx::unit_cell&, const cctbx::sgtbx::space_group&, const scitbx::af::const_ref >&, const scitbx::af::const_ref >&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/ccp4_map/ext.cpp:245:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 245 | for (int i = 0; i < labels.size(); i++) { | ~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/ccp4_map/ext.cpp:278:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 278 | for (int i = 0; i < data_ref.accessor()[0]; i++) { /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/ccp4_map/ext.cpp:280:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 280 | for (int j = 0; j < data_ref.accessor()[1]; j++) { /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/ccp4_map/ext.cpp:281:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 281 | for (int k = 0; k < data_ref.accessor()[2]; k++) { /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/ccp4_map/ext.cpp: In function ‘void iotbx::ccp4_map::write_ccp4_map_p1_cell(const std::string&, const cctbx::uctbx::unit_cell&, const cctbx::sgtbx::space_group&, const scitbx::af::int3&, const scitbx::af::int3&, const scitbx::af::const_ref >&, const scitbx::af::const_ref >&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/ccp4_map/ext.cpp:311:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 311 | for (int i = 0; i < labels.size(); i++) { | ~~^~~~~~~~~~~~~~~ g++ -o iotbx/detectors/detectors_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/detectors/detectors_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/detectors/image_divider.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/detectors/image_divider.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/dsn6/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/dsn6/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/misc/boost_python/dtrek_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/misc/boost_python/dtrek_ext.cpp g++ -o iotbx/misc/boost_python/scalepack_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/misc/boost_python/scalepack_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/mtz/batch_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -DMSETS=32 -DMXTALS=32 -DMCOLUMNS=128 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/batch_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/mtz/column.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DMSETS=32 -DMXTALS=32 -DMCOLUMNS=128 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/column.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/mat3.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/sym_mat3.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/rot_mx.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/rt_mx.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/change_of_basis_op.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tr_group.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/space_group.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:12, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/crystal.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/dataset.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/column.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/column.cpp:1: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h: In member function ‘void iotbx::mtz::object::delete_reflections(const scitbx::af::const_ref&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:591:30: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] 591 | IOTBX_ASSERT(iref[0] < oldsize); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:591:9: note: in expansion of macro ‘IOTBX_ASSERT’ 591 | IOTBX_ASSERT(iref[0] < oldsize); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:594:32: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] 594 | IOTBX_ASSERT(iref[i] < oldsize); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:594:11: note: in expansion of macro ‘IOTBX_ASSERT’ 594 | IOTBX_ASSERT(iref[i] < oldsize); | ^~~~~~~~~~~~ g++ -o iotbx/mtz/column_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -DMSETS=32 -DMXTALS=32 -DMCOLUMNS=128 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/column_bpl.cpp /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/column.cpp: In member function ‘void iotbx::mtz::column::set_reals(const scitbx::af::const_ref&, const scitbx::af::const_ref&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/column.cpp:253:48: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 253 | IOTBX_ASSERT(mtz_reflection_indices.size() <= nref_at_entry); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/column.cpp:253:5: note: in expansion of macro ‘IOTBX_ASSERT’ 253 | IOTBX_ASSERT(mtz_reflection_indices.size() <= nref_at_entry); | ^~~~~~~~~~~~ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/mat3.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/sym_mat3.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/rot_mx.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/rt_mx.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/change_of_basis_op.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tr_group.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/space_group.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:12, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/crystal.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/dataset.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/batch.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/batch_bpl.cpp:6: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h: In member function ‘void iotbx::mtz::object::delete_reflections(const scitbx::af::const_ref&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:591:30: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] 591 | IOTBX_ASSERT(iref[0] < oldsize); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:591:9: note: in expansion of macro ‘IOTBX_ASSERT’ 591 | IOTBX_ASSERT(iref[0] < oldsize); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:594:32: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] 594 | IOTBX_ASSERT(iref[i] < oldsize); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:594:11: note: in expansion of macro ‘IOTBX_ASSERT’ 594 | IOTBX_ASSERT(iref[i] < oldsize); | ^~~~~~~~~~~~ In file included from /usr/include/boost/assert.hpp:64, from /usr/include/boost/smart_ptr/shared_array.hpp:21, from /usr/include/boost/shared_array.hpp:17, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/hendrickson_lattman.h:9, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:13: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = iotbx::mtz::batch; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ 130 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 131 | w_t, | ~~~~ 132 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/batch_bpl.cpp:78:60: required from here 78 | scitbx::af::boost_python::shared_wrapper::wrap( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 79 | "shared_batch"); | ~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ g++ -o iotbx/mtz/crystal.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DMSETS=32 -DMXTALS=32 -DMCOLUMNS=128 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/crystal.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/mtz/crystal_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -DMSETS=32 -DMXTALS=32 -DMCOLUMNS=128 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/crystal_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/mtz/dataset.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DMSETS=32 -DMXTALS=32 -DMCOLUMNS=128 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/dataset.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/mat3.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/sym_mat3.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/rot_mx.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/rt_mx.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/change_of_basis_op.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tr_group.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/space_group.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:12, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/crystal.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/dataset.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/crystal.cpp:1: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h: In member function ‘void iotbx::mtz::object::delete_reflections(const scitbx::af::const_ref&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:591:30: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] 591 | IOTBX_ASSERT(iref[0] < oldsize); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:591:9: note: in expansion of macro ‘IOTBX_ASSERT’ 591 | IOTBX_ASSERT(iref[0] < oldsize); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:594:32: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] 594 | IOTBX_ASSERT(iref[i] < oldsize); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:594:11: note: in expansion of macro ‘IOTBX_ASSERT’ 594 | IOTBX_ASSERT(iref[i] < oldsize); | ^~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/mat3.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/sym_mat3.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/rot_mx.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/rt_mx.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/change_of_basis_op.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tr_group.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/space_group.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:12, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/crystal.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/dataset.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/column.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/column_bpl.cpp:6: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h: In member function ‘void iotbx::mtz::object::delete_reflections(const scitbx::af::const_ref&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:591:30: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] 591 | IOTBX_ASSERT(iref[0] < oldsize); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:591:9: note: in expansion of macro ‘IOTBX_ASSERT’ 591 | IOTBX_ASSERT(iref[0] < oldsize); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:594:32: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] 594 | IOTBX_ASSERT(iref[i] < oldsize); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:594:11: note: in expansion of macro ‘IOTBX_ASSERT’ 594 | IOTBX_ASSERT(iref[i] < oldsize); | ^~~~~~~~~~~~ In file included from /usr/include/boost/assert.hpp:64, from /usr/include/boost/smart_ptr/shared_array.hpp:21, from /usr/include/boost/shared_array.hpp:17, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/hendrickson_lattman.h:9, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:13: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = iotbx::mtz::column; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ 130 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 131 | w_t, | ~~~~ 132 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/column_bpl.cpp:76:60: required from here 76 | scitbx::af::boost_python::shared_wrapper::wrap( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 77 | "shared_column"); | ~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ g++ -o iotbx/mtz/dataset_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -DMSETS=32 -DMXTALS=32 -DMCOLUMNS=128 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/dataset_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/mat3.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/sym_mat3.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/rot_mx.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/rt_mx.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/change_of_basis_op.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tr_group.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/space_group.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:12, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/crystal.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/dataset.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/batch.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/dataset.cpp:1: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h: In member function ‘void iotbx::mtz::object::delete_reflections(const scitbx::af::const_ref&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:591:30: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] 591 | IOTBX_ASSERT(iref[0] < oldsize); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:591:9: note: in expansion of macro ‘IOTBX_ASSERT’ 591 | IOTBX_ASSERT(iref[0] < oldsize); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:594:32: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] 594 | IOTBX_ASSERT(iref[i] < oldsize); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:594:11: note: in expansion of macro ‘IOTBX_ASSERT’ 594 | IOTBX_ASSERT(iref[i] < oldsize); | ^~~~~~~~~~~~ g++ -o iotbx/mtz/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -DMSETS=32 -DMXTALS=32 -DMCOLUMNS=128 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/mtz/object.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DMSETS=32 -DMXTALS=32 -DMCOLUMNS=128 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/mat3.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/sym_mat3.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/rot_mx.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/rt_mx.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/change_of_basis_op.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tr_group.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/space_group.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:12, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/crystal.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/dataset.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/crystal_bpl.cpp:6: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h: In member function ‘void iotbx::mtz::object::delete_reflections(const scitbx::af::const_ref&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:591:30: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] 591 | IOTBX_ASSERT(iref[0] < oldsize); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:591:9: note: in expansion of macro ‘IOTBX_ASSERT’ 591 | IOTBX_ASSERT(iref[0] < oldsize); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:594:32: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] 594 | IOTBX_ASSERT(iref[i] < oldsize); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:594:11: note: in expansion of macro ‘IOTBX_ASSERT’ 594 | IOTBX_ASSERT(iref[i] < oldsize); | ^~~~~~~~~~~~ In file included from /usr/include/boost/assert.hpp:64, from /usr/include/boost/smart_ptr/shared_array.hpp:21, from /usr/include/boost/shared_array.hpp:17, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/hendrickson_lattman.h:9, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:13: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = iotbx::mtz::crystal; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ 130 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 131 | w_t, | ~~~~ 132 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/crystal_bpl.cpp:42:60: required from here 42 | scitbx::af::boost_python::shared_wrapper::wrap( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 43 | "shared_crystal"); | ~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ g++ -o iotbx/mtz/object_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -DMSETS=32 -DMXTALS=32 -DMCOLUMNS=128 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/hendrickson_lattman.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/sym_equiv.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/asu.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.cpp:5: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h: In member function ‘void iotbx::mtz::object::delete_reflections(const scitbx::af::const_ref&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:591:30: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] 591 | IOTBX_ASSERT(iref[0] < oldsize); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:591:9: note: in expansion of macro ‘IOTBX_ASSERT’ 591 | IOTBX_ASSERT(iref[0] < oldsize); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:594:32: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] 594 | IOTBX_ASSERT(iref[i] < oldsize); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:594:11: note: in expansion of macro ‘IOTBX_ASSERT’ 594 | IOTBX_ASSERT(iref[i] < oldsize); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.cpp: In member function ‘void iotbx::mtz::object::replace_miller_indices(const scitbx::af::const_ref >&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.cpp:433:40: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 433 | IOTBX_ASSERT(miller_indices.size() == n_reflections()); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.cpp:433:5: note: in expansion of macro ‘IOTBX_ASSERT’ 433 | IOTBX_ASSERT(miller_indices.size() == n_reflections()); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.cpp:435:28: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 435 | for(int i_refl=0;i_refl iotbx::mtz::object::extract_integers(const scitbx::af::const_ref&, const char*) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.cpp:624:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 624 | for(int i=0;i iotbx::mtz::object::extract_reals(const scitbx::af::const_ref&, const char*) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.cpp:684:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 684 | for(int i=0;i&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:591:30: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] 591 | IOTBX_ASSERT(iref[0] < oldsize); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:591:9: note: in expansion of macro ‘IOTBX_ASSERT’ 591 | IOTBX_ASSERT(iref[0] < oldsize); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:594:32: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] 594 | IOTBX_ASSERT(iref[i] < oldsize); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:594:11: note: in expansion of macro ‘IOTBX_ASSERT’ 594 | IOTBX_ASSERT(iref[i] < oldsize); | ^~~~~~~~~~~~ In file included from /usr/include/boost/assert.hpp:64, from /usr/include/boost/smart_ptr/shared_array.hpp:21, from /usr/include/boost/shared_array.hpp:17, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/hendrickson_lattman.h:9, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:13: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = iotbx::mtz::dataset; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ 130 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 131 | w_t, | ~~~~ 132 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/dataset_bpl.cpp:43:60: required from here 43 | scitbx::af::boost_python::shared_wrapper::wrap( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 44 | "shared_dataset"); | ~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ g++ -o iotbx/pdb/atom_selection.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/atom_selection.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/mat3.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/sym_mat3.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/rot_mx.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/rt_mx.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/change_of_basis_op.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tr_group.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/space_group.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:12, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/crystal.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/dataset.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/batch.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object_bpl.cpp:9: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h: In member function ‘void iotbx::mtz::object::delete_reflections(const scitbx::af::const_ref&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:591:30: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] 591 | IOTBX_ASSERT(iref[0] < oldsize); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:591:9: note: in expansion of macro ‘IOTBX_ASSERT’ 591 | IOTBX_ASSERT(iref[0] < oldsize); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:594:32: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] 594 | IOTBX_ASSERT(iref[i] < oldsize); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:594:11: note: in expansion of macro ‘IOTBX_ASSERT’ 594 | IOTBX_ASSERT(iref[i] < oldsize); | ^~~~~~~~~~~~ g++ -o iotbx/pdb/common_residue_names_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/common_residue_names_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/pdb/construct_hierarchy.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/construct_hierarchy.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/pdb/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/pdb/hierarchy.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hierarchy.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/pdb/hierarchy_atom_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hierarchy_atom_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/pdb/hierarchy_atoms.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hierarchy_atoms.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/pdb/hierarchy_atoms_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hierarchy_atoms_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hierarchy_atoms.cpp:1: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hierarchy_atoms.h:167:8: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 167 | std::auto_ptr | ^~~~~~~~ In file included from /usr/include/c++/15/memory:80, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/detail/misc.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny_plain.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:31, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/namespace.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hierarchy.h:8, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hierarchy_atoms.h:4: /usr/include/c++/15/bits/unique_ptr.h:58:28: note: declared here 58 | template class auto_ptr; | ^~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hierarchy_atoms.h:173:8: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 173 | std::auto_ptr | ^~~~~~~~ /usr/include/c++/15/bits/unique_ptr.h:58:28: note: declared here 58 | template class auto_ptr; | ^~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hierarchy_atoms.cpp:244:8: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 244 | std::auto_ptr | ^~~~~~~~ /usr/include/c++/15/bits/unique_ptr.h:58:28: note: declared here 58 | template class auto_ptr; | ^~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hierarchy_atoms.cpp: In function ‘std::auto_ptr iotbx::pdb::hierarchy::atoms::reset_tmp(const scitbx::af::const_ref&, int, int)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hierarchy_atoms.cpp:250:10: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 250 | std::auto_ptr result(new atom_tmp_sentinel(atoms)); | ^~~~~~~~ /usr/include/c++/15/bits/unique_ptr.h:58:28: note: declared here 58 | template class auto_ptr; | ^~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hierarchy_atoms.cpp: At global scope: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hierarchy_atoms.cpp:259:8: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 259 | std::auto_ptr | ^~~~~~~~ /usr/include/c++/15/bits/unique_ptr.h:58:28: note: declared here 58 | template class auto_ptr; | ^~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hierarchy_atoms.cpp: In function ‘std::auto_ptr iotbx::pdb::hierarchy::atoms::reset_tmp_for_occupancy_groups_simple(const scitbx::af::const_ref&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hierarchy_atoms.cpp:263:10: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 263 | std::auto_ptr result(new atom_tmp_sentinel(atoms)); | ^~~~~~~~ /usr/include/c++/15/bits/unique_ptr.h:58:28: note: declared here 58 | template class auto_ptr; | ^~~~~~~~ g++ -o iotbx/pdb/hierarchy_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hierarchy_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/pdb/hierarchy_select.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hierarchy_select.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scatterer.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hierarchy_atoms_bpl.cpp:2: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 167 | std::auto_ptr | ^~~~~~~~ In file included from /usr/include/c++/15/memory:80, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/detail/misc.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny_plain.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/vec3.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/mat3.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/sym_mat3.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scatterer_flags.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scatterer.h:4: /usr/include/c++/15/bits/unique_ptr.h:58:28: note: declared here 58 | template class auto_ptr; | ^~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hierarchy_atoms.h:173:8: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 173 | std::auto_ptr | ^~~~~~~~ /usr/include/c++/15/bits/unique_ptr.h:58:28: note: declared here 58 | template class auto_ptr; | ^~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hierarchy_atoms_bpl.cpp: In function ‘void iotbx::pdb::hierarchy::atoms::bpl_wrap()’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hierarchy_atoms_bpl.cpp:84:17: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 84 | std::auto_ptr, | ^~~~~~~~ /usr/include/c++/15/bits/unique_ptr.h:58:28: note: declared here 58 | template class auto_ptr; | ^~~~~~~~ g++ -o iotbx/pdb/hierarchy_write.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hierarchy_write.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:6: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here 203 | new tensor_rank_3_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here 214 | new tensor_rank_4_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/15/cassert:46, from /usr/include/boost/function/function_template.hpp:20, from /usr/include/boost/function/function0.hpp:10, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/converter/arg_to_python_base.hpp:7, from /usr/include/boost/python/converter/arg_to_python.hpp:14, from /usr/include/boost/python/call.hpp:15, from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object/class.hpp:9, from /usr/include/boost/python/class.hpp:13, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hierarchy_atoms_bpl.cpp:6: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = iotbx::pdb::hierarchy::atom; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ 130 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 131 | w_t, | ~~~~ 132 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hierarchy_atoms_bpl.cpp:87:36: required from here 87 | class_ wa = wat::wrap("af_shared_atom"); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = iotbx::pdb::hierarchy::atom_with_labels; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ 130 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 131 | w_t, | ~~~~ 132 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hierarchy_atoms_bpl.cpp:91:44: required from here 91 | class_ wawl = wawl_t::wrap("af_shared_atom_with_labels"); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hierarchy_ext.cpp:11: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hierarchy_atoms.h:167:8: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 167 | std::auto_ptr | ^~~~~~~~ In file included from /usr/include/c++/15/memory:80, from /usr/include/boost/config/no_tr1/memory.hpp:21, from /usr/include/boost/get_pointer.hpp:14, from /usr/include/boost/python/object/pointer_holder.hpp:11, from /usr/include/boost/python/to_python_indirect.hpp:10, from /usr/include/boost/python/converter/arg_to_python.hpp:10, from /usr/include/boost/python/call.hpp:15, from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object/class.hpp:9, from /usr/include/boost/python/class.hpp:13, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hierarchy_ext.cpp:4: /usr/include/c++/15/bits/unique_ptr.h:58:28: note: declared here 58 | template class auto_ptr; | ^~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hierarchy_atoms.h:173:8: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 173 | std::auto_ptr | ^~~~~~~~ /usr/include/c++/15/bits/unique_ptr.h:58:28: note: declared here 58 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hierarchy_write.cpp:1: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hierarchy_atoms.h:167:8: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 167 | std::auto_ptr | ^~~~~~~~ In file included from /usr/include/c++/15/memory:80, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/detail/misc.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny_plain.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:31, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/namespace.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hierarchy.h:8, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hierarchy_atoms.h:4: /usr/include/c++/15/bits/unique_ptr.h:58:28: note: declared here 58 | template class auto_ptr; | ^~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hierarchy_atoms.h:173:8: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 173 | std::auto_ptr | ^~~~~~~~ /usr/include/c++/15/bits/unique_ptr.h:58:28: note: declared here 58 | template class auto_ptr; | ^~~~~~~~ g++ -o iotbx/pdb/hybrid_36_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hybrid_36_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ gcc -o iotbx/pdb/hybrid_36_c.o -c -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hybrid_36_c.c g++ -o iotbx/pdb/hybrid_36_cpp.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hybrid_36_cpp.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/pdb/hybrid_36_fem.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable iotbx/pdb/hybrid_36_fem.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/io.hpp:8, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/close_chain.hpp:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/common.hpp:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/read.hpp:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/major_types.hpp:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem.hpp:10, from iotbx/pdb/hybrid_36_fem.cpp:1: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/utils/simple_streams.hpp: In member function ‘virtual void fem::utils::simple_ostream_to_char_ptr_and_size::put(char)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/utils/simple_streams.hpp:63:13: warning: comparison of integer expressions of different signedness: ‘fem::ssize_t’ {aka ‘long int’} and ‘fem::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 63 | if (i < sz) s[i++] = c; | ~~^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/common.hpp: In member function ‘void fem::common::getarg(int, fem::str_ref) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/common.hpp:40:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 40 | if (pos < 0 || pos >= command_line_args.buffer.size()) { | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/utils/string_to_double_fmt.hpp:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/read.hpp:9: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/utils/string_to_double.hpp: In member function ‘void fem::utils::string_to_double::convert(fem::utils::simple_istream&, unsigned int, int)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/utils/string_to_double.hpp:115:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const unsigned int’ [-Wsign-compare] 115 | if (dexp <= ad_hoc_limits::max_digit_count) { | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/read.hpp: In member function ‘double fem::read_loop::read_fmt_double()’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/read.hpp:653:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 653 | if (iw+1 != ed.size()) { | ~~~~~^~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/variant.hpp:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/major_types.hpp:7: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/utils/equivalence.hpp: In member function ‘void fem::utils::equivalence::array_alignment::infer_diffs0_from_diff_matrix()’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/utils/equivalence.hpp:93:28: warning: comparison of integer expressions of different signedness: ‘const fem::ssize_t’ {aka ‘const long int’} and ‘fem::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 93 | if (c0e[0] == i0) { | ~~~~~~~^~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/major_types.hpp:8: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/write.hpp: In destructor ‘fem::write_loop::~write_loop()’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/write.hpp:704:24: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 704 | while (pos < internal_file_len) { | ~~~~^~~~~~~~~~~~~~~~~~~ g++ -o iotbx/pdb/input.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/input.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/pdb/hybrid_36_fem -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread iotbx/pdb/hybrid_36_fem.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread g++ -o iotbx/pdb/input_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/input_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/misc/file_utils.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/input.cpp:3: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/misc/split_lines.h: In function ‘scitbx::af::shared > scitbx::misc::split_lines(const char*, std::size_t, bool, bool)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/misc/split_lines.h:24:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 24 | while (i < size) { | ~~^~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/misc/split_lines.h:25:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 25 | while (i < size && data[i] != '\n' && data[i] != '\r') i++; | ~~^~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/misc/split_lines.h:27:15: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 27 | if (i < size) { | ~~^~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/misc/split_lines.h:28:38: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 28 | if (data[i] == '\r' && i+1 < size && data[i+1] == '\n') { | ~~~~^~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/misc/split_lines.h:46:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 46 | if (j < size) { | ~~^~~~~~ g++ -o iotbx/pdb/input_write.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/input_write.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/pdb/overall_counts.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/overall_counts.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/pdb/rna_dna_atom_names_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/rna_dna_atom_names_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/pdb/utils.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/utils.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/pdb/write_utils.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/write_utils.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/write_utils.cpp: In destructor ‘iotbx::pdb::write_utils::fstream_open_close::~fstream_open_close()’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/write_utils.cpp:42:7: warning: ‘throw’ will always call ‘terminate’ [-Wterminate] 42 | throw std::runtime_error( | ^~~~~~~~~~~~~~~~~~~~~~~~~ 43 | "Failure writing to file: \"" + file_name + "\""); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/write_utils.cpp:42:7: note: in C++11 destructors default to ‘noexcept’ g++ -o iotbx/pdb/xray_structure_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/xray_structure_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/shelx/shelx_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.14 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/shelx/shelx_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/wildcard_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/wildcard_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scatterer.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/xray_structure.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/xray_structure_bpl.cpp:7: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here 203 | new tensor_rank_3_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here 214 | new tensor_rank_4_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ g++ -o lib/libann_adaptor.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libann_adaptor.so.0 annlib_adaptbx/ann/ann_adaptor.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread -lann-cctbx Create symlinks for: 'lib/libann_adaptor.so.0.0.1' 'lib/libann_adaptor.so.0'->'lib/libann_adaptor.so.0.0.1' 'lib/libann_adaptor.so'->'lib/libann_adaptor.so.0.0.1' g++ -o lib/annlib_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=annlib_ext.so.0 annlib_adaptbx/ann/boost_python/annlib_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lann-cctbx -lann_adaptor -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/annlib_ext.so.0.0.1' 'lib/annlib_ext.so.0'->'lib/annlib_ext.so.0.0.1' 'lib/annlib_ext.so'->'lib/annlib_ext.so.0.0.1' g++ -o lib/boost_adaptbx_boost_thread_test_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_adaptbx_boost_thread_test_ext.so.0 boost_adaptbx/tests/boost_thread_test.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/boost_adaptbx_boost_thread_test_ext.so.0.0.1' 'lib/boost_adaptbx_boost_thread_test_ext.so.0'->'lib/boost_adaptbx_boost_thread_test_ext.so.0.0.1' 'lib/boost_adaptbx_boost_thread_test_ext.so'->'lib/boost_adaptbx_boost_thread_test_ext.so.0.0.1' g++ -o lib/boost_adaptbx_graph_breadth_first_search_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_adaptbx_graph_breadth_first_search_ext.so.0 boost_adaptbx/graph/breadth_first_search_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/boost_adaptbx_graph_breadth_first_search_ext.so.0.0.1' 'lib/boost_adaptbx_graph_breadth_first_search_ext.so.0'->'lib/boost_adaptbx_graph_breadth_first_search_ext.so.0.0.1' 'lib/boost_adaptbx_graph_breadth_first_search_ext.so'->'lib/boost_adaptbx_graph_breadth_first_search_ext.so.0.0.1' g++ -o lib/boost_adaptbx_graph_clustering_algorithm_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_adaptbx_graph_clustering_algorithm_ext.so.0 boost_adaptbx/graph/clustering_algorithm_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread -lboost_python314 -lm g++ -o lib/boost_adaptbx_graph_connected_component_algorithm_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_adaptbx_graph_connected_component_algorithm_ext.so.0 boost_adaptbx/graph/connected_component_algorithm_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/boost_adaptbx_graph_clustering_algorithm_ext.so.0.0.1' 'lib/boost_adaptbx_graph_clustering_algorithm_ext.so.0'->'lib/boost_adaptbx_graph_clustering_algorithm_ext.so.0.0.1' 'lib/boost_adaptbx_graph_clustering_algorithm_ext.so'->'lib/boost_adaptbx_graph_clustering_algorithm_ext.so.0.0.1' g++ -o lib/boost_adaptbx_graph_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_adaptbx_graph_ext.so.0 boost_adaptbx/graph/graph_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/boost_adaptbx_graph_connected_component_algorithm_ext.so.0.0.1' 'lib/boost_adaptbx_graph_connected_component_algorithm_ext.so.0'->'lib/boost_adaptbx_graph_connected_component_algorithm_ext.so.0.0.1' 'lib/boost_adaptbx_graph_connected_component_algorithm_ext.so'->'lib/boost_adaptbx_graph_connected_component_algorithm_ext.so.0.0.1' g++ -o lib/boost_adaptbx_graph_graph_structure_comparison_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_adaptbx_graph_graph_structure_comparison_ext.so.0 boost_adaptbx/graph/graph_structure_comparison_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/boost_adaptbx_graph_graph_structure_comparison_ext.so.0.0.1' 'lib/boost_adaptbx_graph_graph_structure_comparison_ext.so.0'->'lib/boost_adaptbx_graph_graph_structure_comparison_ext.so.0.0.1' 'lib/boost_adaptbx_graph_graph_structure_comparison_ext.so'->'lib/boost_adaptbx_graph_graph_structure_comparison_ext.so.0.0.1' g++ -o lib/boost_adaptbx_graph_maximum_clique_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_adaptbx_graph_maximum_clique_ext.so.0 boost_adaptbx/graph/maximum_clique_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/boost_adaptbx_graph_ext.so.0.0.1' 'lib/boost_adaptbx_graph_ext.so.0'->'lib/boost_adaptbx_graph_ext.so.0.0.1' 'lib/boost_adaptbx_graph_ext.so'->'lib/boost_adaptbx_graph_ext.so.0.0.1' g++ -o lib/boost_adaptbx_graph_metric_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_adaptbx_graph_metric_ext.so.0 boost_adaptbx/graph/metric_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/boost_adaptbx_graph_maximum_clique_ext.so.0.0.1' 'lib/boost_adaptbx_graph_maximum_clique_ext.so.0'->'lib/boost_adaptbx_graph_maximum_clique_ext.so.0.0.1' 'lib/boost_adaptbx_graph_maximum_clique_ext.so'->'lib/boost_adaptbx_graph_maximum_clique_ext.so.0.0.1' g++ -o lib/boost_adaptbx_graph_min_cut_max_flow_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_adaptbx_graph_min_cut_max_flow_ext.so.0 boost_adaptbx/graph/min_cut_max_flow_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/boost_adaptbx_graph_metric_ext.so.0.0.1' 'lib/boost_adaptbx_graph_metric_ext.so.0'->'lib/boost_adaptbx_graph_metric_ext.so.0.0.1' 'lib/boost_adaptbx_graph_metric_ext.so'->'lib/boost_adaptbx_graph_metric_ext.so.0.0.1' g++ -o lib/boost_adaptbx_graph_utility_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_adaptbx_graph_utility_ext.so.0 boost_adaptbx/graph/utility_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/boost_adaptbx_graph_utility_ext.so.0.0.1' 'lib/boost_adaptbx_graph_utility_ext.so.0'->'lib/boost_adaptbx_graph_utility_ext.so.0.0.1' 'lib/boost_adaptbx_graph_utility_ext.so'->'lib/boost_adaptbx_graph_utility_ext.so.0.0.1' g++ -o lib/boost_adaptbx_python_streambuf_test_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_adaptbx_python_streambuf_test_ext.so.0 boost_adaptbx/tests/python_streambuf_test_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread -lboost_python314 -lm -lboost_timer Create symlinks for: 'lib/boost_adaptbx_graph_min_cut_max_flow_ext.so.0.0.1' 'lib/boost_adaptbx_graph_min_cut_max_flow_ext.so.0'->'lib/boost_adaptbx_graph_min_cut_max_flow_ext.so.0.0.1' 'lib/boost_adaptbx_graph_min_cut_max_flow_ext.so'->'lib/boost_adaptbx_graph_min_cut_max_flow_ext.so.0.0.1' g++ -o lib/boost_optional_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_optional_ext.so.0 boost_adaptbx/optional_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread -lboost_python314 -lm -lboost_timer Create symlinks for: 'lib/boost_adaptbx_python_streambuf_test_ext.so.0.0.1' 'lib/boost_adaptbx_python_streambuf_test_ext.so.0'->'lib/boost_adaptbx_python_streambuf_test_ext.so.0.0.1' 'lib/boost_adaptbx_python_streambuf_test_ext.so'->'lib/boost_adaptbx_python_streambuf_test_ext.so.0.0.1' g++ -o lib/boost_python_hybrid_times_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_python_hybrid_times_ext.so.0 boost_adaptbx/hybrid_times_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread -lboost_python314 -lm g++ -o lib/boost_python_meta_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_python_meta_ext.so.0 boost_adaptbx/meta_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread -lboost_python314 -lm -lboost_timer Create symlinks for: 'lib/boost_optional_ext.so.0.0.1' 'lib/boost_optional_ext.so.0'->'lib/boost_optional_ext.so.0.0.1' 'lib/boost_optional_ext.so'->'lib/boost_optional_ext.so.0.0.1' g++ -o lib/boost_rational_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_rational_ext.so.0 boost_adaptbx/rational_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/boost_python_hybrid_times_ext.so.0.0.1' 'lib/boost_python_hybrid_times_ext.so.0'->'lib/boost_python_hybrid_times_ext.so.0.0.1' 'lib/boost_python_hybrid_times_ext.so'->'lib/boost_python_hybrid_times_ext.so.0.0.1' Create symlinks for: 'lib/boost_python_meta_ext.so.0.0.1' 'lib/boost_python_meta_ext.so.0'->'lib/boost_python_meta_ext.so.0.0.1' 'lib/boost_python_meta_ext.so'->'lib/boost_python_meta_ext.so.0.0.1' g++ -o lib/boost_tuple_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_tuple_ext.so.0 boost_adaptbx/tuple_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread -lboost_python314 -lm -lboost_timer g++ -o lib/cbflib_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cbflib_ext.so.0 cbflib_adaptbx/detectors/boost_python/cbflib_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lcbf-private -lcbf -lboost_thread -lboost_python314 -lm -lhdf5 Create symlinks for: 'lib/boost_rational_ext.so.0.0.1' 'lib/boost_rational_ext.so.0'->'lib/boost_rational_ext.so.0.0.1' 'lib/boost_rational_ext.so'->'lib/boost_rational_ext.so.0.0.1' g++ -o lib/libccp4io.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libccp4io.so.0 ccp4io_adaptbx/fortran_call_stubs.o ccp4io_adaptbx/printf_wrappers.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread -lm -lccp4c Create symlinks for: 'lib/boost_tuple_ext.so.0.0.1' 'lib/boost_tuple_ext.so.0'->'lib/boost_tuple_ext.so.0.0.1' 'lib/boost_tuple_ext.so'->'lib/boost_tuple_ext.so.0.0.1' Create symlinks for: 'lib/libccp4io.so.0.0.1' 'lib/libccp4io.so.0'->'lib/libccp4io.so.0.0.1' 'lib/libccp4io.so'->'lib/libccp4io.so.0.0.1' g++ -o scitbx/boost_python/utils.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/utils.cpp g++ -o lib/ccp4io_adaptbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=ccp4io_adaptbx_ext.so.0 ccp4io_adaptbx/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lccp4io -lccp4c -lssm -lmmdb2 -lboost_thread -lboost_python314 -lm cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ Create symlinks for: 'lib/cbflib_ext.so.0.0.1' 'lib/cbflib_ext.so.0'->'lib/cbflib_ext.so.0.0.1' 'lib/cbflib_ext.so'->'lib/cbflib_ext.so.0.0.1' g++ -o scitbx/boost_python/slice.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/slice.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ Create symlinks for: 'lib/ccp4io_adaptbx_ext.so.0.0.1' 'lib/ccp4io_adaptbx_ext.so.0'->'lib/ccp4io_adaptbx_ext.so.0.0.1' 'lib/ccp4io_adaptbx_ext.so'->'lib/ccp4io_adaptbx_ext.so.0.0.1' g++ -o scitbx/array_family/boost_python/utils.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/utils.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/cma_es_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cma_es_ext.so.0 cma_es/cma_es_ext.o cma_es/cma/cmaes.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread -lboost_python314 -lm g++ -o lib/dxtbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=dxtbx_ext.so.0 dxtbx/src/dxtbx/boost_python/ext.o dxtbx/src/dxtbx/boost_python/compression.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/base/lib -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lm -ltiff -lboost_python314 -lcbf g++ -o lib/dxtbx_format_image_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=dxtbx_format_image_ext.so.0 dxtbx/src/dxtbx/format/boost_python/image_ext.o dxtbx/src/dxtbx/format/boost_python/cbf_read_buffer.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/base/lib -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lm -ltiff -lboost_python314 -lcbf -lhdf5 Create symlinks for: 'lib/cma_es_ext.so.0.0.1' 'lib/cma_es_ext.so.0'->'lib/cma_es_ext.so.0.0.1' 'lib/cma_es_ext.so'->'lib/cma_es_ext.so.0.0.1' g++ -o lib/dxtbx_format_nexus_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=dxtbx_format_nexus_ext.so.0 dxtbx/src/dxtbx/format/boost_python/nexus_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/base/lib -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lm -ltiff -lboost_python314 -lcbf -lhdf5 Create symlinks for: 'lib/dxtbx_ext.so.0.0.1' 'lib/dxtbx_ext.so.0'->'lib/dxtbx_ext.so.0.0.1' 'lib/dxtbx_ext.so'->'lib/dxtbx_ext.so.0.0.1' g++ -o lib/fable_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=fable_ext.so.0 fable/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/dxtbx_format_nexus_ext.so.0.0.1' 'lib/dxtbx_format_nexus_ext.so.0'->'lib/dxtbx_format_nexus_ext.so.0.0.1' 'lib/dxtbx_format_nexus_ext.so'->'lib/dxtbx_format_nexus_ext.so.0.0.1' g++ -o lib/iotbx_ccp4_map_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_ccp4_map_ext.so.0 iotbx/ccp4_map/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lccp4c -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/dxtbx_format_image_ext.so.0.0.1' 'lib/dxtbx_format_image_ext.so.0'->'lib/dxtbx_format_image_ext.so.0.0.1' 'lib/dxtbx_format_image_ext.so'->'lib/dxtbx_format_image_ext.so.0.0.1' Create symlinks for: 'lib/fable_ext.so.0.0.1' 'lib/fable_ext.so.0'->'lib/fable_ext.so.0.0.1' 'lib/fable_ext.so'->'lib/fable_ext.so.0.0.1' g++ -o ucif/cifParser.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/ucif/cifParser.cpp g++ -o ucif/cifLexer.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/ucif/cifLexer.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ Create symlinks for: 'lib/iotbx_ccp4_map_ext.so.0.0.1' 'lib/iotbx_ccp4_map_ext.so.0'->'lib/iotbx_ccp4_map_ext.so.0.0.1' 'lib/iotbx_ccp4_map_ext.so'->'lib/iotbx_ccp4_map_ext.so.0.0.1' g++ -o lib/iotbx_detectors_bruker_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_detectors_bruker_ext.so.0 iotbx/detectors/bruker_ext.o iotbx/detectors/bruker.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/iotbx_detectors_bruker_ext.so.0.0.1' 'lib/iotbx_detectors_bruker_ext.so.0'->'lib/iotbx_detectors_bruker_ext.so.0.0.1' 'lib/iotbx_detectors_bruker_ext.so'->'lib/iotbx_detectors_bruker_ext.so.0.0.1' g++ -o lib/iotbx_detectors_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_detectors_ext.so.0 iotbx/detectors/detectors_ext.o iotbx/detectors/image_divider.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread -lboost_python314 -lm g++ -o lib/iotbx_dsn6_map_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_dsn6_map_ext.so.0 iotbx/dsn6/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/iotbx_detectors_ext.so.0.0.1' 'lib/iotbx_detectors_ext.so.0'->'lib/iotbx_detectors_ext.so.0.0.1' 'lib/iotbx_detectors_ext.so'->'lib/iotbx_detectors_ext.so.0.0.1' g++ -o lib/iotbx_dtrek_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_dtrek_ext.so.0 iotbx/misc/boost_python/dtrek_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lboost_thread -lboost_python314 -lm g++ -o lib/libiotbx_mtz.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libiotbx_mtz.so.0 iotbx/mtz/object.o iotbx/mtz/crystal.o iotbx/mtz/dataset.o iotbx/mtz/column.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lccp4io -lccp4c -lm -lboost_thread Create symlinks for: 'lib/iotbx_dsn6_map_ext.so.0.0.1' 'lib/iotbx_dsn6_map_ext.so.0'->'lib/iotbx_dsn6_map_ext.so.0.0.1' 'lib/iotbx_dsn6_map_ext.so'->'lib/iotbx_dsn6_map_ext.so.0.0.1' g++ -o lib/libiotbx_pdb.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libiotbx_pdb.so.0 iotbx/pdb/hybrid_36_c.o iotbx/pdb/hybrid_36_cpp.o iotbx/pdb/utils.o iotbx/pdb/write_utils.o iotbx/pdb/hierarchy.o iotbx/pdb/hierarchy_select.o iotbx/pdb/hierarchy_atoms.o iotbx/pdb/construct_hierarchy.o iotbx/pdb/overall_counts.o iotbx/pdb/hierarchy_write.o iotbx/pdb/atom_selection.o iotbx/pdb/input.o iotbx/pdb/input_write.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread Create symlinks for: 'lib/libiotbx_mtz.so.0.0.1' 'lib/libiotbx_mtz.so.0'->'lib/libiotbx_mtz.so.0.0.1' 'lib/libiotbx_mtz.so'->'lib/libiotbx_mtz.so.0.0.1' g++ -o lib/iotbx_scalepack_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_scalepack_ext.so.0 iotbx/misc/boost_python/scalepack_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/iotbx_dtrek_ext.so.0.0.1' 'lib/iotbx_dtrek_ext.so.0'->'lib/iotbx_dtrek_ext.so.0.0.1' 'lib/iotbx_dtrek_ext.so'->'lib/iotbx_dtrek_ext.so.0.0.1' g++ -o lib/iotbx_shelx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_shelx_ext.so.0 iotbx/shelx/shelx_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/iotbx_scalepack_ext.so.0.0.1' 'lib/iotbx_scalepack_ext.so.0'->'lib/iotbx_scalepack_ext.so.0.0.1' 'lib/iotbx_scalepack_ext.so'->'lib/iotbx_scalepack_ext.so.0.0.1' g++ -o lib/iotbx_wildcard_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_wildcard_ext.so.0 iotbx/wildcard_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/iotbx_shelx_ext.so.0.0.1' 'lib/iotbx_shelx_ext.so.0'->'lib/iotbx_shelx_ext.so.0.0.1' 'lib/iotbx_shelx_ext.so'->'lib/iotbx_shelx_ext.so.0.0.1' g++ -o lib/iotbx_xplor_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_xplor_ext.so.0 iotbx/xplor/boost_python/xplor_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -liotbx_xplor -lcctbx -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/libiotbx_pdb.so.0.0.1' 'lib/libiotbx_pdb.so.0'->'lib/libiotbx_pdb.so.0.0.1' 'lib/libiotbx_pdb.so'->'lib/libiotbx_pdb.so.0.0.1' Create symlinks for: 'lib/iotbx_wildcard_ext.so.0.0.1' 'lib/iotbx_wildcard_ext.so.0'->'lib/iotbx_wildcard_ext.so.0.0.1' 'lib/iotbx_wildcard_ext.so'->'lib/iotbx_wildcard_ext.so.0.0.1' Create symlinks for: 'lib/iotbx_xplor_ext.so.0.0.1' 'lib/iotbx_xplor_ext.so.0'->'lib/iotbx_xplor_ext.so.0.0.1' 'lib/iotbx_xplor_ext.so'->'lib/iotbx_xplor_ext.so.0.0.1' g++ -o spotfinder/dxtbx_toolbox/libdistl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -Ispotfinder/src -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/src -Ispotfinder/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/dxtbx_toolbox/libdistl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o spotfinder/dxtbx_toolbox/distl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -Ispotfinder/src -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/src -Ispotfinder/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/dxtbx_toolbox/distl.cpp g++ -o lib/iotbx_cif_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_cif_ext.so.0 iotbx/cif/boost_python/cif_ext.o ucif/cifParser.o ucif/cifLexer.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread -lboost_python314 -lm -lantlr3c cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o spotfinder/core_toolbox/spot.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -Ispotfinder/src -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/src -Ispotfinder/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/core_toolbox/spot.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ Create symlinks for: 'lib/iotbx_cif_ext.so.0.0.1' 'lib/iotbx_cif_ext.so.0'->'lib/iotbx_cif_ext.so.0.0.1' 'lib/iotbx_cif_ext.so'->'lib/iotbx_cif_ext.so.0.0.1' g++ -o spotfinder/core_toolbox/libdistl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -Ispotfinder/src -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/src -Ispotfinder/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/core_toolbox/libdistl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/libscitbx_boost_python.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -shared -rdynamic -std=c++14 -Wl,-soname=libscitbx_boost_python.so.0 scitbx/boost_python/utils.o scitbx/boost_python/slice.o scitbx/array_family/boost_python/utils.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread -lboost_python314 Create symlinks for: 'lib/libscitbx_boost_python.so.0.0.1' 'lib/libscitbx_boost_python.so.0'->'lib/libscitbx_boost_python.so.0.0.1' 'lib/libscitbx_boost_python.so'->'lib/libscitbx_boost_python.so.0.0.1' g++ -o lib/cctbx_anharmonic_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_anharmonic_ext.so.0 cctbx/adptbx/boost_python/anharmonic_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/cctbx_anharmonic_ext.so.0.0.1' 'lib/cctbx_anharmonic_ext.so.0'->'lib/cctbx_anharmonic_ext.so.0.0.1' 'lib/cctbx_anharmonic_ext.so'->'lib/cctbx_anharmonic_ext.so.0.0.1' g++ -o lib/gltbx_glu_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=gltbx_glu_ext.so.0 gltbx/glu_ext.o gltbx/glu_defines_00_bpl.o gltbx/glu_defines_01_bpl.o gltbx/glu_functions_00_bpl.o gltbx/glu_functions_01_bpl.o gltbx/glu_functions_02_bpl.o gltbx/glu_functions_03_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_python314 -lGLU -lGL -lm Create symlinks for: 'lib/gltbx_glu_ext.so.0.0.1' 'lib/gltbx_glu_ext.so.0'->'lib/gltbx_glu_ext.so.0.0.1' 'lib/gltbx_glu_ext.so'->'lib/gltbx_glu_ext.so.0.0.1' g++ -o lib/cctbx_symmetry_search_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_symmetry_search_ext.so.0 cctbx/symmetry_search/boost_python/symmetry_search_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lomptbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/cctbx_symmetry_search_ext.so.0.0.1' 'lib/cctbx_symmetry_search_ext.so.0'->'lib/cctbx_symmetry_search_ext.so.0.0.1' 'lib/cctbx_symmetry_search_ext.so'->'lib/cctbx_symmetry_search_ext.so.0.0.1' g++ -o lib/cctbx_sgtbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_sgtbx_ext.so.0 cctbx/sgtbx/boost_python/sgtbx_ext.o cctbx/sgtbx/boost_python/brick.o cctbx/sgtbx/boost_python/change_of_basis.o cctbx/sgtbx/boost_python/find_affine.o cctbx/sgtbx/boost_python/lattice_symmetry.o cctbx/sgtbx/boost_python/phase_info.o cctbx/sgtbx/boost_python/reciprocal_space_asu.o cctbx/sgtbx/boost_python/rot_mx.o cctbx/sgtbx/boost_python/rt_mx.o cctbx/sgtbx/boost_python/search_symmetry.o cctbx/sgtbx/boost_python/seminvariant.o cctbx/sgtbx/boost_python/site_symmetry.o cctbx/sgtbx/boost_python/space_group.o cctbx/sgtbx/boost_python/space_group_type.o cctbx/sgtbx/boost_python/sym_equiv_sites.o cctbx/sgtbx/boost_python/symbols.o cctbx/sgtbx/boost_python/tensor_rank_2.o cctbx/sgtbx/boost_python/tensors.o cctbx/sgtbx/boost_python/tr_vec.o cctbx/sgtbx/boost_python/wyckoff.o cctbx/sgtbx/boost_python/select_generators.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm g++ -o lib/cctbx_crystal_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_crystal_ext.so.0 cctbx/crystal/crystal_ext.o cctbx/crystal/asu_clusters_bpl.o cctbx/crystal/close_packing_bpl.o cctbx/crystal/coordination_sequences_bpl.o cctbx/crystal/direct_space_asu_bpl.o cctbx/crystal/incremental_pairs_bpl.o cctbx/crystal/neighbors_bpl.o cctbx/crystal/pair_tables_bpl.o cctbx/crystal/site_cluster_analysis_bpl.o cctbx/crystal/symmetry_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm g++ -o lib/gltbx_viewer_utils_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=gltbx_viewer_utils_ext.so.0 gltbx/viewer_utils_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_python314 -lGLU -lGL -lm Create symlinks for: 'lib/cctbx_crystal_ext.so.0.0.1' 'lib/cctbx_crystal_ext.so.0'->'lib/cctbx_crystal_ext.so.0.0.1' 'lib/cctbx_crystal_ext.so'->'lib/cctbx_crystal_ext.so.0.0.1' g++ -o lib/gltbx_gl_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=gltbx_gl_ext.so.0 gltbx/gl_ext.o gltbx/gl_defines_00_bpl.o gltbx/gl_defines_01_bpl.o gltbx/gl_defines_02_bpl.o gltbx/gl_defines_03_bpl.o gltbx/gl_defines_04_bpl.o gltbx/gl_defines_05_bpl.o gltbx/gl_defines_06_bpl.o gltbx/gl_defines_07_bpl.o gltbx/gl_functions_00_bpl.o gltbx/gl_functions_01_bpl.o gltbx/gl_functions_02_bpl.o gltbx/gl_functions_03_bpl.o gltbx/gl_functions_04_bpl.o gltbx/gl_functions_05_bpl.o gltbx/gl_functions_06_bpl.o gltbx/gl_functions_07_bpl.o gltbx/gl_functions_08_bpl.o gltbx/gl_functions_09_bpl.o gltbx/gl_functions_10_bpl.o gltbx/gl_functions_11_bpl.o gltbx/gl_functions_12_bpl.o gltbx/gl_functions_13_bpl.o gltbx/gl_functions_14_bpl.o gltbx/gl_functions_15_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_python314 -lGLU -lGL -lm Create symlinks for: 'lib/gltbx_viewer_utils_ext.so.0.0.1' 'lib/gltbx_viewer_utils_ext.so.0'->'lib/gltbx_viewer_utils_ext.so.0.0.1' 'lib/gltbx_viewer_utils_ext.so'->'lib/gltbx_viewer_utils_ext.so.0.0.1' g++ -o lib/cctbx_array_family_flex_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_array_family_flex_ext.so.0 cctbx/array_family/boost_python/flex_ext.o cctbx/array_family/boost_python/flex_hendrickson_lattman.o cctbx/array_family/boost_python/flex_miller_index.o cctbx/array_family/boost_python/flex_xray_scatterer.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/cctbx_sgtbx_ext.so.0.0.1' 'lib/cctbx_sgtbx_ext.so.0'->'lib/cctbx_sgtbx_ext.so.0.0.1' 'lib/cctbx_sgtbx_ext.so'->'lib/cctbx_sgtbx_ext.so.0.0.1' Create symlinks for: 'lib/gltbx_gl_ext.so.0.0.1' 'lib/gltbx_gl_ext.so.0'->'lib/gltbx_gl_ext.so.0.0.1' 'lib/gltbx_gl_ext.so'->'lib/gltbx_gl_ext.so.0.0.1' g++ -o lib/cctbx_xray_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_xray_ext.so.0 cctbx/xray/boost_python/xray_ext.o cctbx/xray/boost_python/conversions.o cctbx/xray/boost_python/gradient_flags.o cctbx/xray/boost_python/gradients_direct.o cctbx/xray/boost_python/each_hkl_gradients_direct.o cctbx/xray/boost_python/fast_gradients.o cctbx/xray/boost_python/minimization.o cctbx/xray/boost_python/scatterer_flags.o cctbx/xray/boost_python/scatterer.o cctbx/xray/boost_python/scattering_type_registry.o cctbx/xray/boost_python/sampling_base.o cctbx/xray/boost_python/sampled_model_density.o cctbx/xray/boost_python/structure_factors_direct.o cctbx/xray/boost_python/structure_factors_simple.o cctbx/xray/boost_python/curvatures_simple.o cctbx/xray/boost_python/targets.o cctbx/xray/boost_python/f_model_bpl.o cctbx/xray/boost_python/twin_targets.o cctbx/xray/boost_python/grouped_data.o cctbx/xray/boost_python/parameter_map.o cctbx/xray/boost_python/twin_components.o cctbx/xray/boost_python/extinction.o cctbx/xray/boost_python/sigmaa.o cctbx/xray/targets/shelxl_wght_ls_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lomptbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm g++ -o lib/cctbx_geometry_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_geometry_ext.so.0 cctbx/geometry/boost_python/geometry_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/cctbx_array_family_flex_ext.so.0.0.1' 'lib/cctbx_array_family_flex_ext.so.0'->'lib/cctbx_array_family_flex_ext.so.0.0.1' 'lib/cctbx_array_family_flex_ext.so'->'lib/cctbx_array_family_flex_ext.so.0.0.1' g++ -o lib/cctbx_xray_observations_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_xray_observations_ext.so.0 cctbx/xray/observations/boost_python/observations.o cctbx/xray/observations/boost_python/observations_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/cctbx_geometry_ext.so.0.0.1' 'lib/cctbx_geometry_ext.so.0'->'lib/cctbx_geometry_ext.so.0.0.1' 'lib/cctbx_geometry_ext.so'->'lib/cctbx_geometry_ext.so.0.0.1' g++ -o lib/iotbx_pdb_hierarchy_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_pdb_hierarchy_ext.so.0 iotbx/pdb/hierarchy_ext.o iotbx/pdb/hierarchy_atom_bpl.o iotbx/pdb/hierarchy_atoms_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -liotbx_pdb -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm g++ -o lib/cctbx_statistics_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_statistics_ext.so.0 cctbx/boost_python/statistics_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/cctbx_statistics_ext.so.0.0.1' 'lib/cctbx_statistics_ext.so.0'->'lib/cctbx_statistics_ext.so.0.0.1' 'lib/cctbx_statistics_ext.so'->'lib/cctbx_statistics_ext.so.0.0.1' g++ -o lib/dxtbx_flumpy.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=dxtbx_flumpy.so.0 dxtbx/src/dxtbx/boost_python/flumpy.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/base/lib -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lm -ltiff -lboost_python314 -lcbf -lboost_thread -lm -lcctbx -lscitbx_boost_python -ltiff -lboost_python314 -lcbf -lhdf5 Create symlinks for: 'lib/cctbx_xray_observations_ext.so.0.0.1' 'lib/cctbx_xray_observations_ext.so.0'->'lib/cctbx_xray_observations_ext.so.0.0.1' 'lib/cctbx_xray_observations_ext.so'->'lib/cctbx_xray_observations_ext.so.0.0.1' g++ -o lib/cctbx_sgtbx_asu_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_sgtbx_asu_ext.so.0 cctbx/sgtbx/direct_space_asu/proto/asu_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx_sgtbx_asu -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/dxtbx_flumpy.so.0.0.1' 'lib/dxtbx_flumpy.so.0'->'lib/dxtbx_flumpy.so.0.0.1' 'lib/dxtbx_flumpy.so'->'lib/dxtbx_flumpy.so.0.0.1' g++ -o lib/cctbx_adptbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_adptbx_ext.so.0 cctbx/adptbx/boost_python/adptbx_ext.o cctbx/adptbx/boost_python/hirshfeld.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/iotbx_pdb_hierarchy_ext.so.0.0.1' 'lib/iotbx_pdb_hierarchy_ext.so.0'->'lib/iotbx_pdb_hierarchy_ext.so.0.0.1' 'lib/iotbx_pdb_hierarchy_ext.so'->'lib/iotbx_pdb_hierarchy_ext.so.0.0.1' Create symlinks for: 'lib/cctbx_sgtbx_asu_ext.so.0.0.1' 'lib/cctbx_sgtbx_asu_ext.so.0'->'lib/cctbx_sgtbx_asu_ext.so.0.0.1' 'lib/cctbx_sgtbx_asu_ext.so'->'lib/cctbx_sgtbx_asu_ext.so.0.0.1' g++ -o lib/cctbx_geometry_restraints_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_geometry_restraints_ext.so.0 cctbx/geometry_restraints/geometry_restraints_ext.o cctbx/geometry_restraints/bond_bpl.o cctbx/geometry_restraints/bond_similarity_bpl.o cctbx/geometry_restraints/bond_sorted_bpl.o cctbx/geometry_restraints/nonbonded_bpl.o cctbx/geometry_restraints/nonbonded_sorted_bpl.o cctbx/geometry_restraints/angle_bpl.o cctbx/geometry_restraints/dihedral_bpl.o cctbx/geometry_restraints/chirality_bpl.o cctbx/geometry_restraints/planarity_bpl.o cctbx/geometry_restraints/parallelity_bpl.o cctbx/geometry_restraints/motif_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm g++ -o lib/cctbx_eltbx_sasaki_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_sasaki_ext.so.0 cctbx/eltbx/boost_python/sasaki_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/cctbx_adptbx_ext.so.0.0.1' 'lib/cctbx_adptbx_ext.so.0'->'lib/cctbx_adptbx_ext.so.0.0.1' 'lib/cctbx_adptbx_ext.so'->'lib/cctbx_adptbx_ext.so.0.0.1' g++ -o lib/gltbx_fonts_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=gltbx_fonts_ext.so.0 gltbx/fonts_ext.o gltbx/font_ucs_8x13.o gltbx/font_ucs_9x15.o gltbx/font_ucs_10x20.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_python314 -lGLU -lGL -lm g++ -o lib/cctbx_eltbx_wavelengths_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_wavelengths_ext.so.0 cctbx/eltbx/boost_python/wavelengths_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/cctbx_eltbx_wavelengths_ext.so.0.0.1' 'lib/cctbx_eltbx_wavelengths_ext.so.0'->'lib/cctbx_eltbx_wavelengths_ext.so.0.0.1' 'lib/cctbx_eltbx_wavelengths_ext.so'->'lib/cctbx_eltbx_wavelengths_ext.so.0.0.1' g++ -o lib/cctbx_eltbx_covalent_radii_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_covalent_radii_ext.so.0 cctbx/eltbx/boost_python/covalent_radii_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/cctbx_eltbx_sasaki_ext.so.0.0.1' 'lib/cctbx_eltbx_sasaki_ext.so.0'->'lib/cctbx_eltbx_sasaki_ext.so.0.0.1' 'lib/cctbx_eltbx_sasaki_ext.so'->'lib/cctbx_eltbx_sasaki_ext.so.0.0.1' g++ -o lib/cctbx_eltbx_henke_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_henke_ext.so.0 cctbx/eltbx/boost_python/henke_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/cctbx_eltbx_covalent_radii_ext.so.0.0.1' 'lib/cctbx_eltbx_covalent_radii_ext.so.0'->'lib/cctbx_eltbx_covalent_radii_ext.so.0.0.1' 'lib/cctbx_eltbx_covalent_radii_ext.so'->'lib/cctbx_eltbx_covalent_radii_ext.so.0.0.1' Create symlinks for: 'lib/cctbx_xray_ext.so.0.0.1' 'lib/cctbx_xray_ext.so.0'->'lib/cctbx_xray_ext.so.0.0.1' 'lib/cctbx_xray_ext.so'->'lib/cctbx_xray_ext.so.0.0.1' g++ -o lib/dxtbx_masking_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=dxtbx_masking_ext.so.0 dxtbx/src/dxtbx/masking/boost_python/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/base/lib -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lboost_thread -lm -lcctbx -lscitbx_boost_python -ltiff -lboost_python314 -lcbf -lhdf5 Create symlinks for: 'lib/gltbx_fonts_ext.so.0.0.1' 'lib/gltbx_fonts_ext.so.0'->'lib/gltbx_fonts_ext.so.0.0.1' 'lib/gltbx_fonts_ext.so'->'lib/gltbx_fonts_ext.so.0.0.1' Create symlinks for: 'lib/cctbx_eltbx_henke_ext.so.0.0.1' 'lib/cctbx_eltbx_henke_ext.so.0'->'lib/cctbx_eltbx_henke_ext.so.0.0.1' 'lib/cctbx_eltbx_henke_ext.so'->'lib/cctbx_eltbx_henke_ext.so.0.0.1' g++ -o lib/cctbx_covariance_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_covariance_ext.so.0 cctbx/covariance/boost_python/covariance_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm g++ -o lib/iotbx_pdb_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_pdb_ext.so.0 iotbx/pdb/ext.o iotbx/pdb/hybrid_36_bpl.o iotbx/pdb/common_residue_names_bpl.o iotbx/pdb/rna_dna_atom_names_bpl.o iotbx/pdb/input_bpl.o iotbx/pdb/xray_structure_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -liotbx_pdb -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm g++ -o lib/cctbx_uctbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_uctbx_ext.so.0 cctbx/uctbx/boost_python/uctbx_ext.o cctbx/uctbx/boost_python/fast_minimum_reduction.o cctbx/uctbx/boost_python/niggli_reduction.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/cctbx_covariance_ext.so.0.0.1' 'lib/cctbx_covariance_ext.so.0'->'lib/cctbx_covariance_ext.so.0.0.1' 'lib/cctbx_covariance_ext.so'->'lib/cctbx_covariance_ext.so.0.0.1' g++ -o lib/iotbx_mtz_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_mtz_ext.so.0 iotbx/mtz/ext.o iotbx/mtz/object_bpl.o iotbx/mtz/crystal_bpl.o iotbx/mtz/dataset_bpl.o iotbx/mtz/column_bpl.o iotbx/mtz/batch_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -liotbx_mtz -lcctbx -lccp4io -lccp4c -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/cctbx_uctbx_ext.so.0.0.1' 'lib/cctbx_uctbx_ext.so.0'->'lib/cctbx_uctbx_ext.so.0.0.1' 'lib/cctbx_uctbx_ext.so'->'lib/cctbx_uctbx_ext.so.0.0.1' g++ -o lib/cctbx_maptbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_maptbx_ext.so.0 cctbx/maptbx/boost_python/maptbx_ext.o cctbx/maptbx/boost_python/grid_indices_around_sites.o cctbx/maptbx/boost_python/grid_tags.o cctbx/maptbx/boost_python/gridding.o cctbx/maptbx/boost_python/misc.o cctbx/maptbx/boost_python/peak_search.o cctbx/maptbx/boost_python/pymol_interface.o cctbx/maptbx/boost_python/statistics.o cctbx/maptbx/boost_python/structure_factors.o cctbx/maptbx/boost_python/coordinate_transformers.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lomptbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm g++ -o lib/gltbx_util_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=gltbx_util_ext.so.0 gltbx/util_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_python314 -lGLU -lGL -lm Create symlinks for: 'lib/dxtbx_masking_ext.so.0.0.1' 'lib/dxtbx_masking_ext.so.0'->'lib/dxtbx_masking_ext.so.0.0.1' 'lib/dxtbx_masking_ext.so'->'lib/dxtbx_masking_ext.so.0.0.1' Create symlinks for: 'lib/iotbx_pdb_ext.so.0.0.1' 'lib/iotbx_pdb_ext.so.0'->'lib/iotbx_pdb_ext.so.0.0.1' 'lib/iotbx_pdb_ext.so'->'lib/iotbx_pdb_ext.so.0.0.1' g++ -o lib/cctbx_eltbx_icsd_radii_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_icsd_radii_ext.so.0 cctbx/eltbx/boost_python/icsd_radii_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm g++ -o lib/cctbx_math_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_math_ext.so.0 cctbx/math/boost_python/math_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/gltbx_util_ext.so.0.0.1' 'lib/gltbx_util_ext.so.0'->'lib/gltbx_util_ext.so.0.0.1' 'lib/gltbx_util_ext.so'->'lib/gltbx_util_ext.so.0.0.1' g++ -o lib/gltbx_quadrics_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=gltbx_quadrics_ext.so.0 gltbx/quadrics_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_python314 -lGLU -lGL -lm Create symlinks for: 'lib/cctbx_eltbx_icsd_radii_ext.so.0.0.1' 'lib/cctbx_eltbx_icsd_radii_ext.so.0'->'lib/cctbx_eltbx_icsd_radii_ext.so.0.0.1' 'lib/cctbx_eltbx_icsd_radii_ext.so'->'lib/cctbx_eltbx_icsd_radii_ext.so.0.0.1' g++ -o lib/cctbx_merging_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_merging_ext.so.0 cctbx/merging/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/iotbx_mtz_ext.so.0.0.1' 'lib/iotbx_mtz_ext.so.0'->'lib/iotbx_mtz_ext.so.0.0.1' 'lib/iotbx_mtz_ext.so'->'lib/iotbx_mtz_ext.so.0.0.1' Create symlinks for: 'lib/cctbx_math_ext.so.0.0.1' 'lib/cctbx_math_ext.so.0'->'lib/cctbx_math_ext.so.0.0.1' 'lib/cctbx_math_ext.so'->'lib/cctbx_math_ext.so.0.0.1' g++ -o lib/cctbx_eltbx_fp_fdp_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_fp_fdp_ext.so.0 cctbx/eltbx/boost_python/fp_fdp_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm g++ -o lib/cctbx_multipolar_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_multipolar_ext.so.0 cctbx/multipolar/aspherical_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/cctbx_eltbx_fp_fdp_ext.so.0.0.1' 'lib/cctbx_eltbx_fp_fdp_ext.so.0'->'lib/cctbx_eltbx_fp_fdp_ext.so.0.0.1' 'lib/cctbx_eltbx_fp_fdp_ext.so'->'lib/cctbx_eltbx_fp_fdp_ext.so.0.0.1' Create symlinks for: 'lib/cctbx_merging_ext.so.0.0.1' 'lib/cctbx_merging_ext.so.0'->'lib/cctbx_merging_ext.so.0.0.1' 'lib/cctbx_merging_ext.so'->'lib/cctbx_merging_ext.so.0.0.1' g++ -o lib/cctbx_asymmetric_map_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_asymmetric_map_ext.so.0 cctbx/maptbx/asymmetric_map_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lasymmetric_map -liotbx_xplor -lcctbx_sgtbx_asu -lcctbx -lomptbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm g++ -o lib/cctbx_translation_search_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_translation_search_ext.so.0 cctbx/translation_search/boost_python/translation_search_ext.o cctbx/translation_search/boost_python/fast_nv1995.o cctbx/translation_search/boost_python/fast_terms.o cctbx/translation_search/boost_python/symmetry_flags.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lomptbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/cctbx_multipolar_ext.so.0.0.1' 'lib/cctbx_multipolar_ext.so.0'->'lib/cctbx_multipolar_ext.so.0.0.1' 'lib/cctbx_multipolar_ext.so'->'lib/cctbx_multipolar_ext.so.0.0.1' g++ -o lib/dxtbx_imageset_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=dxtbx_imageset_ext.so.0 dxtbx/src/dxtbx/boost_python/imageset_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/base/lib -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lm -ltiff -lboost_python314 -lcbf -lhdf5 -lboost_thread -lm -lcctbx -lscitbx_boost_python -ltiff -lboost_python314 -lcbf -lhdf5 Create symlinks for: 'lib/cctbx_asymmetric_map_ext.so.0.0.1' 'lib/cctbx_asymmetric_map_ext.so.0'->'lib/cctbx_asymmetric_map_ext.so.0.0.1' 'lib/cctbx_asymmetric_map_ext.so'->'lib/cctbx_asymmetric_map_ext.so.0.0.1' g++ -o lib/determine_unit_cell_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=determine_unit_cell_ext.so.0 cctbx/uctbx/determine_unit_cell/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lomptbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/gltbx_quadrics_ext.so.0.0.1' 'lib/gltbx_quadrics_ext.so.0'->'lib/gltbx_quadrics_ext.so.0.0.1' 'lib/gltbx_quadrics_ext.so'->'lib/gltbx_quadrics_ext.so.0.0.1' g++ -o lib/cctbx_miller_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_miller_ext.so.0 cctbx/miller/boost_python/miller_ext.o cctbx/miller/boost_python/asu.o cctbx/miller/boost_python/bins.o cctbx/miller/boost_python/change_basis.o cctbx/miller/boost_python/expand_to_p1.o cctbx/miller/boost_python/index_generator.o cctbx/miller/boost_python/index_span.o cctbx/miller/boost_python/match_bijvoet_mates.o cctbx/miller/boost_python/match_indices.o cctbx/miller/boost_python/match_multi_indices.o cctbx/miller/boost_python/merge_equivalents.o cctbx/miller/boost_python/phase_integrator.o cctbx/miller/boost_python/phase_transfer.o cctbx/miller/boost_python/sym_equiv.o cctbx/miller/boost_python/f_calc_map.o cctbx/miller/boost_python/lookup_utils.o cctbx/miller/boost_python/amplitude_normalisation.o cctbx/miller/boost_python/randomize_amplitude_and_phase.o cctbx/miller/boost_python/slices.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/cctbx_translation_search_ext.so.0.0.1' 'lib/cctbx_translation_search_ext.so.0'->'lib/cctbx_translation_search_ext.so.0.0.1' 'lib/cctbx_translation_search_ext.so'->'lib/cctbx_translation_search_ext.so.0.0.1' g++ -o lib/dxtbx_model_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=dxtbx_model_ext.so.0 dxtbx/src/dxtbx/model/boost_python/beam.o dxtbx/src/dxtbx/model/boost_python/spectrum.o dxtbx/src/dxtbx/model/boost_python/goniometer.o dxtbx/src/dxtbx/model/boost_python/kappa_goniometer.o dxtbx/src/dxtbx/model/boost_python/multi_axis_goniometer.o dxtbx/src/dxtbx/model/boost_python/panel.o dxtbx/src/dxtbx/model/boost_python/detector.o dxtbx/src/dxtbx/model/boost_python/scan.o dxtbx/src/dxtbx/model/boost_python/scan_helpers.o dxtbx/src/dxtbx/model/boost_python/crystal.o dxtbx/src/dxtbx/model/boost_python/parallax_correction.o dxtbx/src/dxtbx/model/boost_python/pixel_to_millimeter.o dxtbx/src/dxtbx/model/boost_python/history.o dxtbx/src/dxtbx/model/boost_python/experiment.o dxtbx/src/dxtbx/model/boost_python/experiment_list.o dxtbx/src/dxtbx/model/boost_python/model_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/base/lib -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lm -ltiff -lboost_python314 -lcbf -lboost_thread -lm -lcctbx -lscitbx_boost_python -ltiff -lboost_python314 -lcbf -lhdf5 Create symlinks for: 'lib/determine_unit_cell_ext.so.0.0.1' 'lib/determine_unit_cell_ext.so.0'->'lib/determine_unit_cell_ext.so.0.0.1' 'lib/determine_unit_cell_ext.so'->'lib/determine_unit_cell_ext.so.0.0.1' g++ -o lib/cctbx_emma_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_emma_ext.so.0 cctbx/boost_python/emma_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/cctbx_emma_ext.so.0.0.1' 'lib/cctbx_emma_ext.so.0'->'lib/cctbx_emma_ext.so.0.0.1' 'lib/cctbx_emma_ext.so'->'lib/cctbx_emma_ext.so.0.0.1' g++ -o lib/cctbx_masks_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_masks_ext.so.0 cctbx/masks/boost_python/masks_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lomptbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/cctbx_masks_ext.so.0.0.1' 'lib/cctbx_masks_ext.so.0'->'lib/cctbx_masks_ext.so.0.0.1' 'lib/cctbx_masks_ext.so'->'lib/cctbx_masks_ext.so.0.0.1' g++ -o lib/cctbx_eltbx_neutron_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_neutron_ext.so.0 cctbx/eltbx/boost_python/neutron_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/cctbx_maptbx_ext.so.0.0.1' 'lib/cctbx_maptbx_ext.so.0'->'lib/cctbx_maptbx_ext.so.0.0.1' 'lib/cctbx_maptbx_ext.so'->'lib/cctbx_maptbx_ext.so.0.0.1' Create symlinks for: 'lib/cctbx_eltbx_neutron_ext.so.0.0.1' 'lib/cctbx_eltbx_neutron_ext.so.0'->'lib/cctbx_eltbx_neutron_ext.so.0.0.1' 'lib/cctbx_eltbx_neutron_ext.so'->'lib/cctbx_eltbx_neutron_ext.so.0.0.1' g++ -o lib/cctbx_french_wilson_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_french_wilson_ext.so.0 cctbx/boost_python/french_wilson_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm g++ -o lib/cctbx_eltbx_tiny_pse_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_tiny_pse_ext.so.0 cctbx/eltbx/boost_python/tiny_pse_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/cctbx_geometry_restraints_ext.so.0.0.1' 'lib/cctbx_geometry_restraints_ext.so.0'->'lib/cctbx_geometry_restraints_ext.so.0.0.1' 'lib/cctbx_geometry_restraints_ext.so'->'lib/cctbx_geometry_restraints_ext.so.0.0.1' Create symlinks for: 'lib/cctbx_french_wilson_ext.so.0.0.1' 'lib/cctbx_french_wilson_ext.so.0'->'lib/cctbx_french_wilson_ext.so.0.0.1' 'lib/cctbx_french_wilson_ext.so'->'lib/cctbx_french_wilson_ext.so.0.0.1' Create symlinks for: 'lib/dxtbx_imageset_ext.so.0.0.1' 'lib/dxtbx_imageset_ext.so.0'->'lib/dxtbx_imageset_ext.so.0.0.1' 'lib/dxtbx_imageset_ext.so'->'lib/dxtbx_imageset_ext.so.0.0.1' Create symlinks for: 'lib/cctbx_eltbx_tiny_pse_ext.so.0.0.1' 'lib/cctbx_eltbx_tiny_pse_ext.so.0'->'lib/cctbx_eltbx_tiny_pse_ext.so.0.0.1' 'lib/cctbx_eltbx_tiny_pse_ext.so'->'lib/cctbx_eltbx_tiny_pse_ext.so.0.0.1' g++ -o lib/cctbx_eltbx_xray_scattering_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_xray_scattering_ext.so.0 cctbx/eltbx/boost_python/xray_scattering_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm g++ -o lib/cctbx_eltbx_attenuation_coefficient_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_attenuation_coefficient_ext.so.0 cctbx/eltbx/boost_python/attenuation_coefficient_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm g++ -o lib/cctbx_orientation_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_orientation_ext.so.0 cctbx/boost_python/orientation_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm g++ -o lib/cctbx_adp_restraints_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_adp_restraints_ext.so.0 cctbx/adp_restraints/adp_restraints_bpl.o cctbx/adp_restraints/adp_restraints_ext.o cctbx/adp_restraints/rigid_bond_bpl.o cctbx/adp_restraints/rigu_bpl.o cctbx/adp_restraints/adp_similarity_bpl.o cctbx/adp_restraints/isotropic_adp_bpl.o cctbx/adp_restraints/aniso_restraints_bpl.o cctbx/adp_restraints/fixed_u_eq_adp_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/cctbx_miller_ext.so.0.0.1' 'lib/cctbx_miller_ext.so.0'->'lib/cctbx_miller_ext.so.0.0.1' 'lib/cctbx_miller_ext.so'->'lib/cctbx_miller_ext.so.0.0.1' Create symlinks for: 'lib/cctbx_eltbx_xray_scattering_ext.so.0.0.1' 'lib/cctbx_eltbx_xray_scattering_ext.so.0'->'lib/cctbx_eltbx_xray_scattering_ext.so.0.0.1' 'lib/cctbx_eltbx_xray_scattering_ext.so'->'lib/cctbx_eltbx_xray_scattering_ext.so.0.0.1' g++ -o lib/cctbx_eltbx_chemical_elements_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_chemical_elements_ext.so.0 cctbx/eltbx/boost_python/chemical_elements_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm g++ -o lib/cctbx_maptbx_bcr_bcr_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_maptbx_bcr_bcr_ext.so.0 cctbx/maptbx/bcr/bcr_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/cctbx_eltbx_attenuation_coefficient_ext.so.0.0.1' 'lib/cctbx_eltbx_attenuation_coefficient_ext.so.0'->'lib/cctbx_eltbx_attenuation_coefficient_ext.so.0.0.1' 'lib/cctbx_eltbx_attenuation_coefficient_ext.so'->'lib/cctbx_eltbx_attenuation_coefficient_ext.so.0.0.1' g++ -o lib/cctbx_dmtbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_dmtbx_ext.so.0 cctbx/dmtbx/boost_python/dmtbx_ext.o cctbx/dmtbx/boost_python/triplet_phase_relation.o cctbx/dmtbx/boost_python/triplet_generator.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/cctbx_orientation_ext.so.0.0.1' 'lib/cctbx_orientation_ext.so.0'->'lib/cctbx_orientation_ext.so.0.0.1' 'lib/cctbx_orientation_ext.so'->'lib/cctbx_orientation_ext.so.0.0.1' g++ -o spotfinder/core_toolbox/hough.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -Ispotfinder/src -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/src -Ispotfinder/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/core_toolbox/hough.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ Create symlinks for: 'lib/cctbx_eltbx_chemical_elements_ext.so.0.0.1' 'lib/cctbx_eltbx_chemical_elements_ext.so.0'->'lib/cctbx_eltbx_chemical_elements_ext.so.0.0.1' 'lib/cctbx_eltbx_chemical_elements_ext.so'->'lib/cctbx_eltbx_chemical_elements_ext.so.0.0.1' g++ -o spotfinder/core_toolbox/distl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -Ispotfinder/src -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/src -Ispotfinder/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/core_toolbox/distl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ Create symlinks for: 'lib/cctbx_maptbx_bcr_bcr_ext.so.0.0.1' 'lib/cctbx_maptbx_bcr_bcr_ext.so.0'->'lib/cctbx_maptbx_bcr_bcr_ext.so.0.0.1' 'lib/cctbx_maptbx_bcr_bcr_ext.so'->'lib/cctbx_maptbx_bcr_bcr_ext.so.0.0.1' g++ -o spotfinder/core_toolbox/spotfilter.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -Ispotfinder/src -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/src -Ispotfinder/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/core_toolbox/spotfilter.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ Create symlinks for: 'lib/cctbx_dmtbx_ext.so.0.0.1' 'lib/cctbx_dmtbx_ext.so.0'->'lib/cctbx_dmtbx_ext.so.0.0.1' 'lib/cctbx_dmtbx_ext.so'->'lib/cctbx_dmtbx_ext.so.0.0.1' Create symlinks for: 'lib/cctbx_adp_restraints_ext.so.0.0.1' 'lib/cctbx_adp_restraints_ext.so.0'->'lib/cctbx_adp_restraints_ext.so.0.0.1' 'lib/cctbx_adp_restraints_ext.so'->'lib/cctbx_adp_restraints_ext.so.0.0.1' g++ -o mmtbx/masks/atom_mask.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/masks/atom_mask.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o mmtbx/tls/decompose.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/tls/decompose.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ Create symlinks for: 'lib/dxtbx_model_ext.so.0.0.1' 'lib/dxtbx_model_ext.so.0'->'lib/dxtbx_model_ext.so.0.0.1' 'lib/dxtbx_model_ext.so'->'lib/dxtbx_model_ext.so.0.0.1' g++ -o rstbx/dps_core/dps_core.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -Irstbx/src -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/src -Irstbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/dps_core/dps_core.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o rstbx/dps_core/directional_fft.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -Irstbx/src -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/src -Irstbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/dps_core/directional_fft.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/libmmtbx_tls.so.0.0.1 -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread -shared -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -Wl,-soname=libmmtbx_tls.so.0 mmtbx/tls/decompose.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lm Create symlinks for: 'lib/libmmtbx_tls.so.0.0.1' 'lib/libmmtbx_tls.so.0'->'lib/libmmtbx_tls.so.0.0.1' 'lib/libmmtbx_tls.so'->'lib/libmmtbx_tls.so.0.0.1' g++ -o rstbx/dps_core/direction.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -Irstbx/src -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/src -Irstbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/dps_core/direction.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o rstbx/indexing_api/indexing_api.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -Irstbx/src -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/src -Irstbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/indexing_api/indexing_api.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o rstbx/diffraction/ewald_sphere.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -Irstbx/src -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/src -Irstbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/ewald_sphere.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/libspotfinder.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libspotfinder.so.0 spotfinder/core_toolbox/spot.o spotfinder/core_toolbox/libdistl.o spotfinder/core_toolbox/hough.o spotfinder/core_toolbox/distl.o spotfinder/core_toolbox/spotfilter.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lann-cctbx -lomptbx -lm Create symlinks for: 'lib/libspotfinder.so.0.0.1' 'lib/libspotfinder.so.0'->'lib/libspotfinder.so.0.0.1' 'lib/libspotfinder.so'->'lib/libspotfinder.so.0.0.1' g++ -o lib/libdxtbxspotfinder.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libdxtbxspotfinder.so.0 spotfinder/dxtbx_toolbox/libdistl.o spotfinder/dxtbx_toolbox/distl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lspotfinder -lann-cctbx -lomptbx -lm g++ -o rstbx/diffraction/partial_spot_position_partial_H.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -Irstbx/src -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/src -Irstbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/partial_spot_position_partial_H.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ Create symlinks for: 'lib/libdxtbxspotfinder.so.0.0.1' 'lib/libdxtbxspotfinder.so.0'->'lib/libdxtbxspotfinder.so.0.0.1' 'lib/libdxtbxspotfinder.so'->'lib/libdxtbxspotfinder.so.0.0.1' g++ -o scitbx/minpack/raw.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/minpack/raw.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ gcc -o scitbx/slatec/lib_c.o -c -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/slatec/lib_c.c g++ -o lib/libscitbx_slatec.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libscitbx_slatec.so.0 scitbx/slatec/lib_c.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread -lm Create symlinks for: 'lib/libscitbx_slatec.so.0.0.1' 'lib/libscitbx_slatec.so.0'->'lib/libscitbx_slatec.so.0.0.1' 'lib/libscitbx_slatec.so'->'lib/libscitbx_slatec.so.0.0.1' g++ -o smtbx/refinement/constraints/affine.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints/affine.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/constraints/geometrical_hydrogens.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints/geometrical_hydrogens.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/constraints/occupancy.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints/occupancy.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/libscitbx_minpack.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libscitbx_minpack.so.0 scitbx/minpack/raw.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread -lm Create symlinks for: 'lib/libscitbx_minpack.so.0.0.1' 'lib/libscitbx_minpack.so.0'->'lib/libscitbx_minpack.so.0.0.1' 'lib/libscitbx_minpack.so'->'lib/libscitbx_minpack.so.0.0.1' g++ -o smtbx/refinement/constraints/reparametrisation.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints/reparametrisation.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/librstbx.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=librstbx.so.0 rstbx/dps_core/dps_core.o rstbx/dps_core/directional_fft.o rstbx/dps_core/direction.o rstbx/indexing_api/indexing_api.o rstbx/diffraction/ewald_sphere.o rstbx/diffraction/partial_spot_position_partial_H.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread -lcctbx -lm Create symlinks for: 'lib/librstbx.so.0.0.1' 'lib/librstbx.so.0'->'lib/librstbx.so.0.0.1' 'lib/librstbx.so'->'lib/librstbx.so.0.0.1' g++ -o smtbx/refinement/constraints/rigid.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints/rigid.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/constraints/same_group.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints/same_group.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/constraints/scaled_adp.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints/scaled_adp.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/constraints/shared.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints/shared.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/constraints/special_position.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints/special_position.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/constraints/symmetry_equivalent.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints/symmetry_equivalent.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/constraints/u_eq_dependent_u_iso.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints/u_eq_dependent_u_iso.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/constraints/u_iso_dependent_u_iso.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints/u_iso_dependent_u_iso.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/libmmtbx_masks.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libmmtbx_masks.so.0 mmtbx/masks/atom_mask.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lomptbx -lcctbx_sgtbx_asu -lm Create symlinks for: 'lib/libmmtbx_masks.so.0.0.1' 'lib/libmmtbx_masks.so.0'->'lib/libmmtbx_masks.so.0.0.1' 'lib/libmmtbx_masks.so'->'lib/libmmtbx_masks.so.0.0.1' g++ -o mmtbx/alignment/alignment_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/alignment/alignment_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o mmtbx/building/loop_closure/ccd_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/building/loop_closure/ccd_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o mmtbx/bulk_solvent/bulk_solvent_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/bulk_solvent/bulk_solvent_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o mmtbx/bulk_solvent/bulk_solvent.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/bulk_solvent/bulk_solvent.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o mmtbx/den/boost_python/den_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/den/boost_python/den_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/libsmtbx_refinement_constraints.so.0.0.1 -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread -shared -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -Wl,-soname=libsmtbx_refinement_constraints.so.0 smtbx/refinement/constraints/affine.o smtbx/refinement/constraints/geometrical_hydrogens.o smtbx/refinement/constraints/occupancy.o smtbx/refinement/constraints/reparametrisation.o smtbx/refinement/constraints/rigid.o smtbx/refinement/constraints/same_group.o smtbx/refinement/constraints/scaled_adp.o smtbx/refinement/constraints/shared.o smtbx/refinement/constraints/special_position.o smtbx/refinement/constraints/symmetry_equivalent.o smtbx/refinement/constraints/u_eq_dependent_u_iso.o smtbx/refinement/constraints/u_iso_dependent_u_iso.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread Create symlinks for: 'lib/libsmtbx_refinement_constraints.so.0.0.1' 'lib/libsmtbx_refinement_constraints.so.0'->'lib/libsmtbx_refinement_constraints.so.0.0.1' 'lib/libsmtbx_refinement_constraints.so'->'lib/libsmtbx_refinement_constraints.so.0.0.1' g++ -o mmtbx/secondary_structure/dssp_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/secondary_structure/dssp_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o mmtbx/dynamics/dynamics_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/dynamics/dynamics_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/wyckoff.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/sym_equiv_sites.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/crystal/direct_space_asu.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/asu_cache.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/bond.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/den/den.h:2, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/den/boost_python/den_ext.cpp:12: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i'lib/mmtbx_alignment_ext.so.0.0.1' 'lib/mmtbx_alignment_ext.so'->'lib/mmtbx_alignment_ext.so.0.0.1' g++ -o mmtbx/dynamics/dynamics.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/dynamics/dynamics.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:6: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here 203 | new tensor_rank_3_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here 214 | new tensor_rank_4_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/assert.hpp:64, from /usr/include/boost/smart_ptr/shared_array.hpp:21, from /usr/include/boost/shared_array.hpp:17, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensor_rank_2.h:9, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:5: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = mmtbx::den::den_simple_proxy; GetitemReturnValuePolicy = boost::python::return_internal_reference<>; std::string = std::__cxx11::basic_string]’ 130 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 131 | w_t, | ~~~~ 132 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/den/boost_python/den_ext.cpp:53:78: required from here 53 | scitbx::af::boost_python::shared_wrapper::wrap( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 54 | "shared_den_simple_proxy") | ~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ g++ -o mmtbx/f_model/f_model_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/f_model/f_model_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_dssp_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_dssp_ext.so.0 mmtbx/secondary_structure/dssp_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -liotbx_pdb -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/mmtbx_dssp_ext.so.0.0.1' 'lib/mmtbx_dssp_ext.so.0'->'lib/mmtbx_dssp_ext.so.0.0.1' 'lib/mmtbx_dssp_ext.so'->'lib/mmtbx_dssp_ext.so.0.0.1' g++ -o mmtbx/geometry/boost_python/asa_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/geometry/boost_python/asa_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_building_loop_closure_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_building_loop_closure_ext.so.0 mmtbx/building/loop_closure/ccd_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -liotbx_pdb -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/mmtbx_building_loop_closure_ext.so.0.0.1' 'lib/mmtbx_building_loop_closure_ext.so.0'->'lib/mmtbx_building_loop_closure_ext.so.0.0.1' 'lib/mmtbx_building_loop_closure_ext.so'->'lib/mmtbx_building_loop_closure_ext.so.0.0.1' g++ -o mmtbx/geometry/boost_python/clash_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/geometry/boost_python/clash_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_dynamics_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_dynamics_ext.so.0 mmtbx/dynamics/dynamics_ext.o mmtbx/dynamics/dynamics.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/mmtbx_dynamics_ext.so.0.0.1' 'lib/mmtbx_dynamics_ext.so.0'->'lib/mmtbx_dynamics_ext.so.0.0.1' 'lib/mmtbx_dynamics_ext.so'->'lib/mmtbx_dynamics_ext.so.0.0.1' g++ -o mmtbx/geometry/boost_python/indexing_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/geometry/boost_python/indexing_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /usr/include/boost/smart_ptr/detail/deprecated_macros.hpp:8, from /usr/include/boost/smart_ptr/detail/sp_counted_base.hpp:20, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:22, from /usr/include/boost/smart_ptr/shared_ptr.hpp:17, from /usr/include/boost/shared_ptr.hpp:17, from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, from /usr/include/boost/python/converter/arg_to_python.hpp:15, from /usr/include/boost/python/call.hpp:15, from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object/class.hpp:9, from /usr/include/boost/python/class.hpp:13, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/geometry/boost_python/asa_ext.cpp:2: /usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ g++ -o lib/mmtbx_den_restraints_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_den_restraints_ext.so.0 mmtbx/den/boost_python/den_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/mmtbx_den_restraints_ext.so.0.0.1' 'lib/mmtbx_den_restraints_ext.so.0'->'lib/mmtbx_den_restraints_ext.so.0.0.1' 'lib/mmtbx_den_restraints_ext.so'->'lib/mmtbx_den_restraints_ext.so.0.0.1' g++ -o mmtbx/geometry/boost_python/primitive_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/geometry/boost_python/primitive_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /usr/include/boost/smart_ptr/detail/deprecated_macros.hpp:8, from /usr/include/boost/smart_ptr/detail/sp_counted_base.hpp:20, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:22, from /usr/include/boost/smart_ptr/shared_ptr.hpp:17, from /usr/include/boost/shared_ptr.hpp:17, from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, from /usr/include/boost/python/converter/arg_to_python.hpp:15, from /usr/include/boost/python/call.hpp:15, from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object/class.hpp:9, from /usr/include/boost/python/class.hpp:13, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/geometry/boost_python/clash_ext.cpp:2: /usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/deprecated_macros.hpp:8, from /usr/include/boost/smart_ptr/detail/sp_counted_base.hpp:20, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:22, from /usr/include/boost/smart_ptr/shared_ptr.hpp:17, from /usr/include/boost/shared_ptr.hpp:17, from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, from /usr/include/boost/python/converter/arg_to_python.hpp:15, from /usr/include/boost/python/call.hpp:15, from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/extract.hpp:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/geometry/boost_python/indexing_ext.cpp:2: /usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ g++ -o lib/mmtbx_f_model_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_f_model_ext.so.0 mmtbx/f_model/f_model_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/mmtbx_f_model_ext.so.0.0.1' 'lib/mmtbx_f_model_ext.so.0'->'lib/mmtbx_f_model_ext.so.0.0.1' 'lib/mmtbx_f_model_ext.so'->'lib/mmtbx_f_model_ext.so.0.0.1' g++ -o mmtbx/geometry/boost_python/shared_types_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/geometry/boost_python/shared_types_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_geometry_primitive_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_geometry_primitive_ext.so.0 mmtbx/geometry/boost_python/primitive_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/mmtbx_geometry_primitive_ext.so.0.0.1' 'lib/mmtbx_geometry_primitive_ext.so.0'->'lib/mmtbx_geometry_primitive_ext.so.0.0.1' 'lib/mmtbx_geometry_primitive_ext.so'->'lib/mmtbx_geometry_primitive_ext.so.0.0.1' g++ -o mmtbx/geometry/boost_python/sphere_surface_sampling_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/geometry/boost_python/sphere_surface_sampling_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /usr/include/boost/smart_ptr/detail/deprecated_macros.hpp:8, from /usr/include/boost/smart_ptr/detail/sp_counted_base.hpp:20, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:22, from /usr/include/boost/smart_ptr/shared_ptr.hpp:17, from /usr/include/boost/shared_ptr.hpp:17, from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, from /usr/include/boost/python/converter/arg_to_python.hpp:15, from /usr/include/boost/python/call.hpp:15, from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object/class.hpp:9, from /usr/include/boost/python/class.hpp:13, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/geometry/boost_python/shared_types_ext.cpp:2: /usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ g++ -o lib/mmtbx_bulk_solvent_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_bulk_solvent_ext.so.0 mmtbx/bulk_solvent/bulk_solvent_ext.o mmtbx/bulk_solvent/bulk_solvent.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/mmtbx_bulk_solvent_ext.so.0.0.1' 'lib/mmtbx_bulk_solvent_ext.so.0'->'lib/mmtbx_bulk_solvent_ext.so.0.0.1' 'lib/mmtbx_bulk_solvent_ext.so'->'lib/mmtbx_bulk_solvent_ext.so.0.0.1' g++ -o mmtbx/hydrogens/hydrogens_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/hydrogens/hydrogens_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_geometry_shared_types_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_geometry_shared_types_ext.so.0 mmtbx/geometry/boost_python/shared_types_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/mmtbx_geometry_shared_types_ext.so.0.0.1' 'lib/mmtbx_geometry_shared_types_ext.so.0'->'lib/mmtbx_geometry_shared_types_ext.so.0.0.1' 'lib/mmtbx_geometry_shared_types_ext.so'->'lib/mmtbx_geometry_shared_types_ext.so.0.0.1' g++ -o mmtbx/masks/masks_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/masks/masks_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_geometry_sphere_surface_sampling_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_geometry_sphere_surface_sampling_ext.so.0 mmtbx/geometry/boost_python/sphere_surface_sampling_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/mmtbx_geometry_sphere_surface_sampling_ext.so.0.0.1' 'lib/mmtbx_geometry_sphere_surface_sampling_ext.so.0'->'lib/mmtbx_geometry_sphere_surface_sampling_ext.so.0.0.1' 'lib/mmtbx_geometry_sphere_surface_sampling_ext.so'->'lib/mmtbx_geometry_sphere_surface_sampling_ext.so.0.0.1' g++ -o mmtbx/max_lik/max_lik_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/max_lik/max_lik_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_geometry_indexing_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_geometry_indexing_ext.so.0 mmtbx/geometry/boost_python/indexing_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/mmtbx_geometry_indexing_ext.so.0.0.1' 'lib/mmtbx_geometry_indexing_ext.so.0'->'lib/mmtbx_geometry_indexing_ext.so.0.0.1' 'lib/mmtbx_geometry_indexing_ext.so'->'lib/mmtbx_geometry_indexing_ext.so.0.0.1' g++ -o mmtbx/max_lik/max_lik.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/max_lik/max_lik.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_geometry_clash_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_geometry_clash_ext.so.0 mmtbx/geometry/boost_python/clash_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/mmtbx_geometry_clash_ext.so.0.0.1' 'lib/mmtbx_geometry_clash_ext.so.0'->'lib/mmtbx_geometry_clash_ext.so.0.0.1' 'lib/mmtbx_geometry_clash_ext.so'->'lib/mmtbx_geometry_clash_ext.so.0.0.1' g++ -o mmtbx/bulk_solvent/mosaic_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/bulk_solvent/mosaic_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_hydrogens_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_hydrogens_ext.so.0 mmtbx/hydrogens/hydrogens_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/mmtbx_hydrogens_ext.so.0.0.1' 'lib/mmtbx_hydrogens_ext.so.0'->'lib/mmtbx_hydrogens_ext.so.0.0.1' 'lib/mmtbx_hydrogens_ext.so'->'lib/mmtbx_hydrogens_ext.so.0.0.1' g++ -o mmtbx/ncs/cartesian_restraints_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/ncs/cartesian_restraints_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o mmtbx/ncs/tncs_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/ncs/tncs_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_masks_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_masks_ext.so.0 mmtbx/masks/masks_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lmmtbx_masks -lcctbx_sgtbx_asu -lcctbx -lomptbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/mmtbx_masks_ext.so.0.0.1' 'lib/mmtbx_masks_ext.so.0'->'lib/mmtbx_masks_ext.so.0.0.1' 'lib/mmtbx_masks_ext.so'->'lib/mmtbx_masks_ext.so.0.0.1' g++ -o mmtbx/pair_interaction/interaction_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/pair_interaction/interaction_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_ncs_cartesian_restraints_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_ncs_cartesian_restraints_ext.so.0 mmtbx/ncs/cartesian_restraints_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/mmtbx_ncs_cartesian_restraints_ext.so.0.0.1' 'lib/mmtbx_ncs_cartesian_restraints_ext.so.0'->'lib/mmtbx_ncs_cartesian_restraints_ext.so.0.0.1' 'lib/mmtbx_ncs_cartesian_restraints_ext.so'->'lib/mmtbx_ncs_cartesian_restraints_ext.so.0.0.1' g++ -o mmtbx/probe/boost_python/probe_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/probe/boost_python/probe_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_mosaic_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_mosaic_ext.so.0 mmtbx/bulk_solvent/mosaic_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm g++ -o lib/mmtbx_geometry_asa_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_geometry_asa_ext.so.0 mmtbx/geometry/boost_python/asa_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/mmtbx_mosaic_ext.so.0.0.1' 'lib/mmtbx_mosaic_ext.so.0'->'lib/mmtbx_mosaic_ext.so.0.0.1' 'lib/mmtbx_mosaic_ext.so'->'lib/mmtbx_mosaic_ext.so.0.0.1' g++ -o mmtbx/probe/Scoring.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/probe/Scoring.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ Create symlinks for: 'lib/mmtbx_geometry_asa_ext.so.0.0.1' 'lib/mmtbx_geometry_asa_ext.so.0'->'lib/mmtbx_geometry_asa_ext.so.0.0.1' 'lib/mmtbx_geometry_asa_ext.so'->'lib/mmtbx_geometry_asa_ext.so.0.0.1' g++ -o mmtbx/probe/DotSpheres.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/probe/DotSpheres.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_max_lik_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_max_lik_ext.so.0 mmtbx/max_lik/max_lik_ext.o mmtbx/max_lik/max_lik.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/mmtbx_max_lik_ext.so.0.0.1' 'lib/mmtbx_max_lik_ext.so.0'->'lib/mmtbx_max_lik_ext.so.0.0.1' 'lib/mmtbx_max_lik_ext.so'->'lib/mmtbx_max_lik_ext.so.0.0.1' g++ -o mmtbx/probe/SpatialQuery.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/probe/SpatialQuery.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_ncs_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_ncs_ext.so.0 mmtbx/ncs/tncs_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm g++ -o mmtbx/geometry_restraints/boost_python/ramachandran_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/geometry_restraints/boost_python/ramachandran_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ Create symlinks for: 'lib/mmtbx_ncs_ext.so.0.0.1' 'lib/mmtbx_ncs_ext.so.0'->'lib/mmtbx_ncs_ext.so.0.0.1' 'lib/mmtbx_ncs_ext.so'->'lib/mmtbx_ncs_ext.so.0.0.1' g++ -o mmtbx/reduce/boost_python/reduce_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/reduce/boost_python/reduce_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o mmtbx/reduce/PositionReturn.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/reduce/PositionReturn.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scatterer.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/restraints.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/dihedral.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/geometry_restraints/ramachandran.h:10, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/geometry_restraints/boost_python/ramachandran_ext.cpp:11: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i mmtbx::geometry_restraints::target_phi_psi(const scitbx::af::const_ref, scitbx::af::trivial_accessor>&, const scitbx::af::const_ref, scitbx::af::trivial_accessor>&, const phi_psi_proxy&) [with FloatType = double]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/geometry_restraints/ramachandran.h:314:35: required from here 314 | r = target_phi_psi(general_table, sites_cart, proxy);} | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/geometry_restraints/ramachandran.h:269:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref, scitbx::af::trivial_accessor>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 269 | for(int i=0; i, scitbx::af::trivial_accessor>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 284 | for(int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here 203 | new tensor_rank_3_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here 214 | new tensor_rank_4_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/assert.hpp:64, from /usr/include/boost/format/parsing.hpp:21, from /usr/include/boost/format.hpp:50, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/dihedral.h:8: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = mmtbx::geometry_restraints::phi_psi_proxy; GetitemReturnValuePolicy = boost::python::return_internal_reference<>; std::string = std::__cxx11::basic_string]’ 130 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 131 | w_t, | ~~~~ 132 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/geometry_restraints/boost_python/ramachandran_ext.cpp:52:75: required from here 52 | scitbx::af::boost_python::shared_wrapper::wrap( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 53 | "shared_phi_psi_proxy") | ~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ g++ -o lib/mmtbx_pair_interaction_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_pair_interaction_ext.so.0 mmtbx/pair_interaction/interaction_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/mmtbx_pair_interaction_ext.so.0.0.1' 'lib/mmtbx_pair_interaction_ext.so.0'->'lib/mmtbx_pair_interaction_ext.so.0.0.1' 'lib/mmtbx_pair_interaction_ext.so'->'lib/mmtbx_pair_interaction_ext.so.0.0.1' g++ -o mmtbx/reduce/InteractionGraph.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/reduce/InteractionGraph.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o mmtbx/reduce/Optimizers.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/reduce/Optimizers.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ ar rc probe/lib/libprobelib.a mmtbx/probe/Scoring.o mmtbx/probe/DotSpheres.o mmtbx/probe/SpatialQuery.o ranlib probe/lib/libprobelib.a g++ -o mmtbx/geometry_restraints/boost_python/reference_coordinate_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/geometry_restraints/boost_python/reference_coordinate_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/wyckoff.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/sym_equiv_sites.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/crystal/direct_space_asu.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/asu_cache.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/bond.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/geometry_restraints/reference_coordinate.h:2, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/geometry_restraints/boost_python/reference_coordinate_ext.cpp:13: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i cctbx::geometry_restraints::shared_proxy_remove(const scitbx::af::const_ref&, const scitbx::af::const_ref&) [with ProxyType = mmtbx::geometry_restraints::reference_coordinate_proxy]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/geometry_restraints/boost_python/reference_coordinate_ext.cpp:80:41: required from here 80 | cctbx::geometry_restraints::shared_proxy_remove, ( | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/proxy_select.h:187:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 187 | if (match_ctr != i_seqs.size()) { | ~~~~~~~~~~^~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:6: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here 203 | new tensor_rank_3_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here 214 | new tensor_rank_4_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/assert.hpp:64, from /usr/include/boost/smart_ptr/shared_array.hpp:21, from /usr/include/boost/shared_array.hpp:17, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensor_rank_2.h:9, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:5: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = mmtbx::geometry_restraints::reference_coordinate_proxy; GetitemReturnValuePolicy = boost::python::return_internal_reference<>; std::string = std::__cxx11::basic_string]’ 130 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 131 | w_t, | ~~~~ 132 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/geometry_restraints/boost_python/reference_coordinate_ext.cpp:61:25: required from here 61 | shared_w_t::wrap( | ~~~~~~~~~~~~~~~~^ 62 | "shared_reference_coordinate_proxy") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ g++ -o lib/mmtbx_probe_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_probe_ext.so.0 mmtbx/probe/boost_python/probe_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Lprobe/lib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/probe/lib -lprobelib -liotbx_pdb -lcctbx -lscitbx_boost_python -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/mmtbx_probe_ext.so.0.0.1' 'lib/mmtbx_probe_ext.so.0'->'lib/mmtbx_probe_ext.so.0.0.1' 'lib/mmtbx_probe_ext.so'->'lib/mmtbx_probe_ext.so.0.0.1' g++ -o mmtbx/rotamer/fit_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/rotamer/fit_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o mmtbx/rsr/rsr_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/rsr/rsr_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_ramachandran_restraints_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_ramachandran_restraints_ext.so.0 mmtbx/geometry_restraints/boost_python/ramachandran_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/mmtbx_ramachandran_restraints_ext.so.0.0.1' 'lib/mmtbx_ramachandran_restraints_ext.so.0'->'lib/mmtbx_ramachandran_restraints_ext.so.0.0.1' 'lib/mmtbx_ramachandran_restraints_ext.so'->'lib/mmtbx_ramachandran_restraints_ext.so.0.0.1' g++ -o mmtbx/scaling/scaling_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/scaling/scaling_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_reference_coordinate_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_reference_coordinate_ext.so.0 mmtbx/geometry_restraints/boost_python/reference_coordinate_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/mmtbx_reference_coordinate_ext.so.0.0.1' 'lib/mmtbx_reference_coordinate_ext.so.0'->'lib/mmtbx_reference_coordinate_ext.so.0.0.1' 'lib/mmtbx_reference_coordinate_ext.so'->'lib/mmtbx_reference_coordinate_ext.so.0.0.1' g++ -o mmtbx/scaling/twinning_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/scaling/twinning_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_rsr_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_rsr_ext.so.0 mmtbx/rsr/rsr_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/mmtbx_rsr_ext.so.0.0.1' 'lib/mmtbx_rsr_ext.so.0'->'lib/mmtbx_rsr_ext.so.0.0.1' 'lib/mmtbx_rsr_ext.so'->'lib/mmtbx_rsr_ext.so.0.0.1' g++ -o mmtbx/scaling/relative_scaling_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/scaling/relative_scaling_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o mmtbx/scaling/outlier_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/scaling/outlier_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_rotamer_fit_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_rotamer_fit_ext.so.0 mmtbx/rotamer/fit_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm ar rc reduce/lib/libreduce2lib.a mmtbx/reduce/PositionReturn.o mmtbx/reduce/InteractionGraph.o mmtbx/reduce/Optimizers.o Create symlinks for: 'lib/mmtbx_rotamer_fit_ext.so.0.0.1' 'lib/mmtbx_rotamer_fit_ext.so.0'->'lib/mmtbx_rotamer_fit_ext.so.0.0.1' 'lib/mmtbx_rotamer_fit_ext.so'->'lib/mmtbx_rotamer_fit_ext.so.0.0.1' ranlib reduce/lib/libreduce2lib.a g++ -o mmtbx/secondary_structure/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/secondary_structure/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o mmtbx/tls/decompose_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/tls/decompose_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_secondary_structure_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_secondary_structure_ext.so.0 mmtbx/secondary_structure/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -liotbx_pdb -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/mmtbx_secondary_structure_ext.so.0.0.1' 'lib/mmtbx_secondary_structure_ext.so.0'->'lib/mmtbx_secondary_structure_ext.so.0.0.1' 'lib/mmtbx_secondary_structure_ext.so'->'lib/mmtbx_secondary_structure_ext.so.0.0.1' g++ -o mmtbx/tls/tls_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/tls/tls_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_tls_decompose_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_tls_decompose_ext.so.0 mmtbx/tls/decompose_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lmmtbx_tls -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/mmtbx_tls_decompose_ext.so.0.0.1' 'lib/mmtbx_tls_decompose_ext.so.0'->'lib/mmtbx_tls_decompose_ext.so.0.0.1' 'lib/mmtbx_tls_decompose_ext.so'->'lib/mmtbx_tls_decompose_ext.so.0.0.1' g++ -o mmtbx/tls/optimise_amplitudes.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/tls/optimise_amplitudes.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_reduce_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_reduce_ext.so.0 mmtbx/reduce/boost_python/reduce_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Lreduce/lib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/reduce/lib -Lprobe/lib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/probe/lib -lreduce2lib -lprobelib -liotbx_pdb -lcctbx -lscitbx_boost_python -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/mmtbx_reduce_ext.so.0.0.1' 'lib/mmtbx_reduce_ext.so.0'->'lib/mmtbx_reduce_ext.so.0.0.1' 'lib/mmtbx_reduce_ext.so'->'lib/mmtbx_reduce_ext.so.0.0.1' g++ -o mmtbx/tls/optimise_amplitudes_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/tls/optimise_amplitudes_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o mmtbx/tls/utils.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/tls/utils.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o mmtbx/tls/utils_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/tls/utils_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o mmtbx/utils/utils_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/utils/utils_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_scaling_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_scaling_ext.so.0 mmtbx/scaling/scaling_ext.o mmtbx/scaling/twinning_bpl.o mmtbx/scaling/relative_scaling_bpl.o mmtbx/scaling/outlier_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/mmtbx_scaling_ext.so.0.0.1' 'lib/mmtbx_scaling_ext.so.0'->'lib/mmtbx_scaling_ext.so.0.0.1' 'lib/mmtbx_scaling_ext.so'->'lib/mmtbx_scaling_ext.so.0.0.1' g++ -o mmtbx/validation/ramachandran/rama_eval_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/validation/ramachandran/rama_eval_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_tls_optimise_amplitudes_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_tls_optimise_amplitudes_ext.so.0 mmtbx/tls/optimise_amplitudes.o mmtbx/tls/optimise_amplitudes_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lmmtbx_tls -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/mmtbx_tls_optimise_amplitudes_ext.so.0.0.1' 'lib/mmtbx_tls_optimise_amplitudes_ext.so.0'->'lib/mmtbx_tls_optimise_amplitudes_ext.so.0.0.1' 'lib/mmtbx_tls_optimise_amplitudes_ext.so'->'lib/mmtbx_tls_optimise_amplitudes_ext.so.0.0.1' g++ -o omptbx/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/usr/include/python3.14 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/omptbx/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/omptbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=omptbx_ext.so.0 omptbx/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lomptbx -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/omptbx_ext.so.0.0.1' 'lib/omptbx_ext.so.0'->'lib/omptbx_ext.so.0.0.1' 'lib/omptbx_ext.so'->'lib/omptbx_ext.so.0.0.1' g++ -o rstbx/array_family/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/usr/include/python3.14 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -Irstbx/src -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/src -Irstbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/array_family/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o rstbx/array_family/flex_rstbx_arrays.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/usr/include/python3.14 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -Irstbx/src -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/src -Irstbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/array_family/flex_rstbx_arrays.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o rstbx/bandpass/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/usr/include/python3.14 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -Irstbx/bandpass/src -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/src -Irstbx/bandpass/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_validation_ramachandran_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_validation_ramachandran_ext.so.0 mmtbx/validation/ramachandran/rama_eval_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/mmtbx_validation_ramachandran_ext.so.0.0.1' 'lib/mmtbx_validation_ramachandran_ext.so.0'->'lib/mmtbx_validation_ramachandran_ext.so.0.0.1' 'lib/mmtbx_validation_ramachandran_ext.so'->'lib/mmtbx_validation_ramachandran_ext.so.0.0.1' g++ -o rstbx/bpcx/detector_model/detector_model_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/usr/include/python3.14 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -Irstbx/bpcx/src -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bpcx/src -Irstbx/bpcx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bpcx/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bpcx/detector_model/detector_model_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_utils_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_utils_ext.so.0 mmtbx/utils/utils_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/mmtbx_utils_ext.so.0.0.1' 'lib/mmtbx_utils_ext.so.0'->'lib/mmtbx_utils_ext.so.0.0.1' 'lib/mmtbx_utils_ext.so'->'lib/mmtbx_utils_ext.so.0.0.1' g++ -o rstbx/bpcx/detector_model/sensor.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/usr/include/python3.14 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -Irstbx/bpcx/src -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bpcx/src -Irstbx/bpcx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bpcx/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bpcx/detector_model/sensor.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp:10: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/parameters.h: In constructor ‘rstbx::bandpass::active_area_filter::active_area_filter(scitbx::af::shared)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/parameters.h:100:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i < tiles.size()/4; ++i){ | ~~^~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:31, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/parameters.h:3: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/parameters.h: In member function ‘bool rstbx::bandpass::active_area_filter::operator()(rstbx::bandpass::vec3, const int&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/parameters.h:126:39: warning: comparison of integer expressions of different signedness: ‘scitbx::af::versa_plain >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 126 | SCITBX_ASSERT( adapt.nn.size()== NEAR); | ~~~~~~~~~~~~~~~^~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/parameters.h:126:9: note: in expansion of macro ‘SCITBX_ASSERT’ 126 | SCITBX_ASSERT( adapt.nn.size()== NEAR); | ^~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp:11: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/subpixel_joint_model.h: In member function ‘void rstbx::bandpass::subpixel_joint_model::set_subpixel(scitbx::af::shared, scitbx::af::shared)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/subpixel_joint_model.h:26:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 26 | for (int ixx=0; ixx< rotations_deg.size(); ++ixx){ | ~~~^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/subpixel_joint_model.h:31:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 31 | for (int ixx=0; ixx< rotations_deg.size(); ++ixx){ | ~~~^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp: In member function ‘void rstbx::bandpass::use_case_bp3::prescreen_indices(const double&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp:46:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 46 | for (int idx = 0; idx < P.indices.size(); ++idx){ | ~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp: In member function ‘scitbx::af::shared rstbx::bandpass::use_case_bp3::selected_partialities() const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp:93:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 93 | for (int idx = 0; idx < lo_E_limit.size(); ++idx){ | ~~~~^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp: In member function ‘void rstbx::bandpass::use_case_bp3::picture_fast_slow()’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp:152:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 152 | for (int idx = 0; idx < P.indices.size(); ++idx){ | ~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp: In member function ‘void rstbx::bandpass::use_case_bp3::picture_fast_slow_force()’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp:296:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 296 | for (int idx = 0; idx < P.indices.size(); ++idx){ | ~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp:462:30: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 462 | for ( int idx = 0; idx < P.indices.size(); ++idx){ | ~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp: In member function ‘scitbx::af::shared > rstbx::bandpass::use_case_bp3::spot_rectangles(rstbx::bandpass::vec3ref)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp:477:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 477 | for (int idx = 0; idx < lo_E_limit.size(); ++idx){ | ~~~~^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp: In member function ‘scitbx::af::shared > rstbx::bandpass::use_case_bp3::spot_rectregions(rstbx::bandpass::vec3ref, const double&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp:511:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 511 | for (int idx = 0; idx < lo_E_limit.size(); ++idx){ | ~~~~^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp: In member function ‘scitbx::af::shared > rstbx::bandpass::use_case_bp3::enclosed_pixels() const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp:543:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 543 | for (int idx = 0; idx < spot_rectangle_vertices.size(); idx+=5){ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp: In member function ‘scitbx::af::shared > rstbx::bandpass::use_case_bp3::selected_hi_predictions() const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp:752:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 752 | for (int idx = 0; idx < lo_E_limit.size(); ++idx){ | ~~~~^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp: In member function ‘scitbx::af::shared > rstbx::bandpass::use_case_bp3::selected_lo_predictions() const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp:763:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 763 | for (int idx = 0; idx < lo_E_limit.size(); ++idx){ | ~~~~^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp: In member function ‘scitbx::af::shared > rstbx::bandpass::use_case_bp3::selected_predictions() const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp:774:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 774 | for (int idx = 0; idx < lo_E_limit.size(); ++idx){ | ~~~~^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp: In member function ‘scitbx::af::shared > rstbx::bandpass::use_case_bp3::selected_predictions_labelit_format() const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp:787:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 787 | for (int idx = 0; idx < lo_E_limit.size(); ++idx){ | ~~~~^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp: In member function ‘scitbx::af::shared > rstbx::bandpass::use_case_bp3::selected_hkls() const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp:802:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 802 | for (int idx = 0; idx < lo_E_limit.size(); ++idx){ | ~~~~^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp: In member function ‘scitbx::af::shared > rstbx::bandpass::use_case_bp3::restricted_to_active_areas(scitbx::af::shared, scitbx::af::shared >) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp:815:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 815 | for (int idx = 0; idx < active_areas.size(); idx+=4){ | ~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp: In member function ‘void rstbx::bandpass::use_case_bp3::set_subpixel(scitbx::af::shared, scitbx::af::shared)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp:828:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 828 | for (int ixx=0; ixx< rotations_deg.size(); ++ixx){ //DEPRECATED | ~~~^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp: In function ‘scitbx::af::shared > rstbx::bandpass::ext::use_case_bp2_picture_fast_slow(scitbx::af::shared >, const cctbx::crystal_orientation&, const scitbx::vec3&, const double&, const scitbx::vec3&, const scitbx::vec3&, const scitbx::vec3&, const scitbx::vec3&, const scitbx::vec3&, const double&, const scitbx::vec3&, const double&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp:933:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 933 | for (int idx = 0; idx < indices.size(); ++idx){ | ~~~~^~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp: In instantiation of ‘void rstbx::bandpass::use_case_bp3::enclosed_pixels_and_margin_pixels_detail() [with pixel_accept_policy = resolution_limited_pixel_accept_policy]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp:616:87: required from here 616 | enclosed_pixels_and_margin_pixels_detail(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp:631:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 631 | for (int idx = 0; idx < spot_rectangle_vertices.size(); idx+=5){ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp: In instantiation of ‘void rstbx::bandpass::use_case_bp3::enclosed_pixels_and_margin_pixels_detail() [with pixel_accept_policy = unlimited_pixel_accept_policy]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp:620:78: required from here 620 | enclosed_pixels_and_margin_pixels_detail(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp:631:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 631 | for (int idx = 0; idx < spot_rectangle_vertices.size(); idx+=5){ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -o rstbx/diffraction/fastbragg/fastbragg_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/usr/include/python3.14 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -Irstbx/diffraction/fastbragg/src -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/fastbragg/src -Irstbx/diffraction/fastbragg/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/fastbragg/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/fastbragg/fastbragg_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_tls_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_tls_ext.so.0 mmtbx/tls/tls_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lmmtbx_tls -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/mmtbx_tls_ext.so.0.0.1' 'lib/mmtbx_tls_ext.so.0'->'lib/mmtbx_tls_ext.so.0.0.1' 'lib/mmtbx_tls_ext.so'->'lib/mmtbx_tls_ext.so.0.0.1' g++ -o rstbx/diffraction/fastbragg/fastbragg.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/usr/include/python3.14 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -Irstbx/diffraction/fastbragg/src -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/fastbragg/src -Irstbx/diffraction/fastbragg/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/fastbragg/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/fastbragg/fastbragg.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/fastbragg/fastbragg.cpp:1: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h: In member function ‘scitbx::af::versa > rstbx::diffraction::fastbragg::detector::intdata()’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h:89:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::versa_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 89 | for (int count = 0; count < raw.size(); ++count){ | ~~~~~~^~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/vec3.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h:8: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h: In member function ‘scitbx::af::shared rstbx::diffraction::fastbragg::camera::get_wavelengths() const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h:133:32: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] 133 | SCITBX_ASSERT(result.size()==dispsteps); | ~~~~~~~~~~~~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h:133:5: note: in expansion of macro ‘SCITBX_ASSERT’ 133 | SCITBX_ASSERT(result.size()==dispsteps); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h: In member function ‘std::map, double> rstbx::diffraction::fastbragg::crystal::get_amplitude_mapping() const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h:176:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 176 | for (int i = 0; i < miller.size(); ++i){ | ~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h: In member function ‘void rstbx::diffraction::fastbragg::fast_bragg_simulation::sweep_over_detector(const bool&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h:305:38: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 305 | for(int i_lambda=0; i_lambda < lambdas.size(); ++i_lambda){ | ~~~~~~~~~^~~~~~~~~~~~~~~~ g++ -o rstbx/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/usr/include/python3.14 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -Irstbx/src -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/src -Irstbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/rstbx_bpcx_detector_model_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=rstbx_bpcx_detector_model_ext.so.0 rstbx/bpcx/detector_model/detector_model_ext.o rstbx/bpcx/detector_model/sensor.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lrstbx -lann-cctbx -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/fastbragg/fastbragg_ext.cpp:10: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h: In member function ‘scitbx::af::versa > rstbx::diffraction::fastbragg::detector::intdata()’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h:89:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::versa_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 89 | for (int count = 0; count < raw.size(); ++count){ | ~~~~~~^~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/vec3.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h:8: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h: In member function ‘scitbx::af::shared rstbx::diffraction::fastbragg::camera::get_wavelengths() const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h:133:32: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] 133 | SCITBX_ASSERT(result.size()==dispsteps); | ~~~~~~~~~~~~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h:133:5: note: in expansion of macro ‘SCITBX_ASSERT’ 133 | SCITBX_ASSERT(result.size()==dispsteps); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h: In member function ‘std::map, double> rstbx::diffraction::fastbragg::crystal::get_amplitude_mapping() const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h:176:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 176 | for (int i = 0; i < miller.size(); ++i){ | ~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h: In member function ‘void rstbx::diffraction::fastbragg::fast_bragg_simulation::sweep_over_detector(const bool&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h:305:38: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 305 | for(int i_lambda=0; i_lambda < lambdas.size(); ++i_lambda){ | ~~~~~~~~~^~~~~~~~~~~~~~~~ Create symlinks for: 'lib/rstbx_bpcx_detector_model_ext.so.0.0.1' 'lib/rstbx_bpcx_detector_model_ext.so.0'->'lib/rstbx_bpcx_detector_model_ext.so.0.0.1' 'lib/rstbx_bpcx_detector_model_ext.so'->'lib/rstbx_bpcx_detector_model_ext.so.0.0.1' /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h: In instantiation of ‘scitbx::af::shared rstbx::diffraction::fastbragg::fast_bragg_simulation::sweep_over_detector_get_indices(const bool&) [with IndexType = scitbx::vec3; MillerConversionPolicy = rstbx::diffraction::fastbragg::vec3_double_miller_index_policy]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/fastbragg/fastbragg_ext.cpp:134:11: required from here 127 | class_("fast_bragg_simulation",init<>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 128 | | 129 | .def("set_detector",&fast_bragg_simulation::set_detector) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 130 | .def("set_camera",&fast_bragg_simulation::set_camera) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 131 | .def("set_crystal",&fast_bragg_simulation::set_crystal) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 132 | .def("sweep_over_detector",&fast_bragg_simulation::sweep_over_detector, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | (arg_("verbose")=false)) | ~~~~~~~~~~~~~~~~~~~~~~~~ 134 | .def("sweep_over_detector_float_indices",&fast_bragg_simulation::sweep_over_detector_get_indices< | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 135 | rstbx::diffraction::fastbragg::vec3, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 136 | rstbx::diffraction::fastbragg::vec3_double_miller_index_policy>, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 137 | (arg_("verbose")=false)) | ~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h:456:38: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 456 | for(int i_lambda=0; i_lambda < lambdas.size(); ++i_lambda){ | ~~~~~~~~~^~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h: In instantiation of ‘scitbx::af::shared rstbx::diffraction::fastbragg::fast_bragg_simulation::sweep_over_detector_get_indices(const bool&) [with IndexType = cctbx::miller::index<>; MillerConversionPolicy = rstbx::diffraction::fastbragg::integer_miller_index_policy]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/fastbragg/fastbragg_ext.cpp:138:11: required from here 127 | class_("fast_bragg_simulation",init<>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 128 | | 129 | .def("set_detector",&fast_bragg_simulation::set_detector) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 130 | .def("set_camera",&fast_bragg_simulation::set_camera) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 131 | .def("set_crystal",&fast_bragg_simulation::set_crystal) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 132 | .def("sweep_over_detector",&fast_bragg_simulation::sweep_over_detector, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | (arg_("verbose")=false)) | ~~~~~~~~~~~~~~~~~~~~~~~~ 134 | .def("sweep_over_detector_float_indices",&fast_bragg_simulation::sweep_over_detector_get_indices< | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 135 | rstbx::diffraction::fastbragg::vec3, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 136 | rstbx::diffraction::fastbragg::vec3_double_miller_index_policy>, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 137 | (arg_("verbose")=false)) | ~~~~~~~~~~~~~~~~~~~~~~~~ 138 | .def("sweep_over_detector_integer_indices",&fast_bragg_simulation::sweep_over_detector_get_indices< | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 139 | rstbx::diffraction::fastbragg::miller_t, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 140 | rstbx::diffraction::fastbragg::integer_miller_index_policy>, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 141 | (arg_("verbose")=false)) | ~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h:456:38: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 456 | for(int i_lambda=0; i_lambda < lambdas.size(); ++i_lambda){ | ~~~~~~~~~^~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h: In constructor ‘scitbx::af::shared_plain::shared_plain(const size_type&) [with ElementType = scitbx::vec3]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:132:34: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/15/memory:71, from /usr/include/boost/config/no_tr1/memory.hpp:21, from /usr/include/boost/get_pointer.hpp:14, from /usr/include/boost/python/object/pointer_holder.hpp:11, from /usr/include/boost/python/to_python_indirect.hpp:10, from /usr/include/boost/python/converter/arg_to_python.hpp:10, from /usr/include/boost/python/call.hpp:15, from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object.hpp:9, from /usr/include/boost/python/scope.hpp:9, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp:4: /usr/include/c++/15/bits/stl_uninitialized.h:526:5: note: by argument 3 of type ‘const scitbx::vec3&’ to ‘_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = scitbx::vec3*; _Size = long unsigned int; _Tp = scitbx::vec3]’ declared here 526 | uninitialized_fill_n(_ForwardIterator __first, _Size __n, const _Tp& __x) | ^~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:132:48: note: ‘’ declared here 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); | ^~~~~~~~~~~~~ g++ -o rstbx/indexing_api/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/usr/include/python3.14 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -Irstbx/indexing_api/src -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/indexing_api/src -Irstbx/indexing_api/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/indexing_api/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/indexing_api/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/fftpack/real_to_complex.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/dps_core/directional_fft.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/dps_core/dps_core.h:11, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/indexing_api/indexing_api.h:9, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/indexing_api/ext.cpp:4: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/fftpack/factorization.h: In constructor ‘scitbx::fftpack::factorization::factorization(std::size_t, bool)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/fftpack/factorization.h:64:32: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::tiny_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 64 | for (i = 0; red_n > 1 && i < opt_factors.size(); i++) { | ~~^~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/fftpack/factorization.h:67:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::tiny_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 67 | for (i = 0; i < opt_factors.size(); i++) { | ~~^~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/virtual_panel.h:28, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel_data.h:17, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:22, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/detector.h:25, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/indexing_api/indexing_api.h:11: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam()’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:551:18: warning: ‘scitbx::vec3 dxtbx::model::Beam::direction_’ [-Wreorder] 551 | vec3 direction_; | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:93:5: warning: when initialized here [-Wreorder] 93 | Beam() | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:126:5: warning: when initialized here [-Wreorder] 126 | Beam(vec3 direction, double wavelength) | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:165:5: warning: when initialized here [-Wreorder] 165 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:193:5: warning: when initialized here [-Wreorder] 193 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:227:5: warning: when initialized here [-Wreorder] 227 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In member function ‘virtual scitbx::af::shared > dxtbx::model::PolychromaticBeam::get_s0_at_scan_points() const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:760:52: warning: left operand of comma operator has no effect [-Wunused-value] 760 | return scitbx::af::shared >(1, (0., 0., 0.)); | ^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:760:60: warning: right operand of comma operator has no effect [-Wunused-value] 760 | return scitbx::af::shared >(1, (0., 0., 0.)); | ^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:288:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 288 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:289:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 289 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:328:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 328 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:329:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 329 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:408:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 408 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:409:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 409 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:449:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 449 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:450:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 450 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h: In member function ‘void dxtbx::model::Panel::apply_untrusted_rectangle_mask(scitbx::af::ref >) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:435:36: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 435 | for (std::size_t y = y0; y < y1; ++y) { | ~~^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:436:38: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 436 | for (std::size_t x = x0; x < x1; ++x) { | ~~^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/indexing_api/ext.cpp: In member function ‘void indexing_api::rayleigh_cpp::estimate_parameters_from_cdf(scitbx::af::shared, scitbx::af::shared)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/indexing_api/ext.cpp:59:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 59 | for (int i=0; i < x_data.size(); ++i){ | ~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/indexing_api/ext.cpp: In member function ‘scitbx::af::shared indexing_api::rayleigh_cpp::pdf(scitbx::af::shared)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/indexing_api/ext.cpp:80:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 80 | for (int i = 0; i < x.size(); ++i){ | ~~^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/indexing_api/ext.cpp: In member function ‘scitbx::af::shared indexing_api::rayleigh_cpp::cdf(scitbx::af::shared)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/indexing_api/ext.cpp:96:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 96 | for (int i = 0; i < x.size(); ++i){ | ~~^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/indexing_api/ext.cpp: In member function ‘scitbx::af::shared indexing_api::rayleigh_cpp::d_cdf_d_sigma(scitbx::af::shared)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/indexing_api/ext.cpp:113:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 113 | for (int i = 0; i < x.size(); ++i){ | ~~^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/indexing_api/ext.cpp: In member function ‘scitbx::af::shared indexing_api::rayleigh_cpp::gradients(scitbx::af::shared, const int&, scitbx::af::shared)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/indexing_api/ext.cpp:129:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 129 | for (int i = 0; i < x.size(); ++i){ | ~~^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/indexing_api/ext.cpp:135:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 135 | for (int i = 0; i < gradients.size(); ++i){ | ~~^~~~~~~~~~~~~~~~~~ g++ -o lib/rstbx_bandpass_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=rstbx_bandpass_ext.so.0 rstbx/bandpass/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lann-cctbx -lann_adaptor -lrstbx -lann-cctbx -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/rstbx_bandpass_ext.so.0.0.1' 'lib/rstbx_bandpass_ext.so.0'->'lib/rstbx_bandpass_ext.so.0.0.1' 'lib/rstbx_bandpass_ext.so'->'lib/rstbx_bandpass_ext.so.0.0.1' g++ -o rstbx/apps/integration_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/usr/include/python3.14 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -Irstbx/apps/src -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/apps/src -Irstbx/apps/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/apps/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/apps/integration_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_tls_utils_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_tls_utils_ext.so.0 mmtbx/tls/utils.o mmtbx/tls/utils_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lmmtbx_tls -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/mmtbx_tls_utils_ext.so.0.0.1' 'lib/mmtbx_tls_utils_ext.so.0'->'lib/mmtbx_tls_utils_ext.so.0.0.1' 'lib/mmtbx_tls_utils_ext.so'->'lib/mmtbx_tls_utils_ext.so.0.0.1' g++ -o rstbx/simage/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/usr/include/python3.14 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -Irstbx/simage/src -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/simage/src -Irstbx/simage/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/simage/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/simage/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/rstbx_diffraction_fastbragg_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=rstbx_diffraction_fastbragg_ext.so.0 rstbx/diffraction/fastbragg/fastbragg_ext.o rstbx/diffraction/fastbragg/fastbragg.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lrstbx -lann-cctbx -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm g++ -o lib/rstbx_indexing_api_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=rstbx_indexing_api_ext.so.0 rstbx/indexing_api/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lrstbx -lann-cctbx -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/rstbx_diffraction_fastbragg_ext.so.0.0.1' 'lib/rstbx_diffraction_fastbragg_ext.so.0'->'lib/rstbx_diffraction_fastbragg_ext.so.0.0.1' 'lib/rstbx_diffraction_fastbragg_ext.so'->'lib/rstbx_diffraction_fastbragg_ext.so.0.0.1' Create symlinks for: 'lib/rstbx_indexing_api_ext.so.0.0.1' 'lib/rstbx_indexing_api_ext.so.0'->'lib/rstbx_indexing_api_ext.so.0.0.1' 'lib/rstbx_indexing_api_ext.so'->'lib/rstbx_indexing_api_ext.so.0.0.1' g++ -o rstbx/simulation/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/usr/include/python3.14 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -Irstbx/simulation/src -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/simulation/src -Irstbx/simulation/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/simulation/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/simulation/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/core_toolbox/libdistl.h:81, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/core_toolbox/distl.h:14, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/apps/stills/simple_integration.h:9, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/apps/integration_ext.cpp:3: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/detectors/scanbox.h: In member function ‘Distl::interval_list Distl::scanbox_tiling_explicit::generate_defined_x_tiles(const int&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/detectors/scanbox.h:268:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 268 | for (int tile = 0 ; tile < tile_count; ++tile){ | ~~~~~^~~~~~~~~~~~ g++ -o rstbx/symmetry/constraints/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/usr/include/python3.14 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -Irstbx/symmetry/constraints/src -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/symmetry/constraints/src -Irstbx/symmetry/constraints/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/symmetry/constraints/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/symmetry/constraints/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/apps/stills/simple_integration.h: In member function ‘void rstbx::integration::simple_integration::append_ISmask(scitbx::af::shared)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/apps/stills/simple_integration.h:222:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 222 | for (int i=0; i < mask.size(); i+=2){ | ~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/apps/stills/simple_integration.h: In member function ‘void rstbx::integration::simple_integration::positional_correction_mapping(scitbx::af::shared >, scitbx::af::shared >, const annlib_adaptbx::AnnAdaptor&, const annlib_adaptbx::AnnAdaptor&, scitbx::af::shared)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/apps/stills/simple_integration.h:273:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 273 | for (int i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 287 | for (int p=0; p >, scitbx::af::shared >, const annlib_adaptbx::AnnAdaptor&, scitbx::af::shared)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/apps/stills/simple_integration.h:310:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 310 | for (int i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 320 | for (int p=0; p > rstbx::integration::simple_integration::safe_background(const scitbx::af::flex_int&, scitbx::af::shared >, const annlib_adaptbx::AnnAdaptor&, scitbx::af::shared)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/apps/stills/simple_integration.h:366:30: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 366 | for (int isort=0; isort >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 378 | for (int isort=0; isort >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 395 | for (int i=0; i >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 495 | for (int isort=0; isort >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 550 | for (int i=0; i >, scitbx::af::shared >, scitbx::af::shared >)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/apps/stills/simple_integration.h:575:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 575 | for (int i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 631 | for (int k=0; k::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 638 | for (int k=0; k >&, const scitbx::af::const_ref&, const scitbx::mat3&, double, double, int, double, scitbx::vec2, scitbx::vec2, unsigned int, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/simage/image_simple.hpp:144:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 144 | for(int i=0;i<=point_spread;i++) { | ~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/simage/image_simple.hpp:148:28: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 148 | for(int j=0;j<=point_spread;j++) { | ~^~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/simage/image_simple.hpp:10: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/simage/ext.cpp: In function ‘std::string rstbx::simage::ext::combine_rgb_images(const boost::python::list&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/simage/ext.cpp:58:42: warning: comparison of integer expressions of different signedness: ‘boost::python::ssize_t’ {aka ‘long int’} and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 58 | TBXX_ASSERT(bp::len(rgb_images[j]) == img_size); | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/tbxx/error_utils.hpp:59:9: note: in definition of macro ‘TBXX_ASSERT’ 59 | if (!(condition)) { \ | ^~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/simulation/ext.cpp:11: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/simulation/sim_xfel1.h: In member function ‘scitbx::af::shared rstbx::xfel1::select_proximal_indices(const int&, const double&, const double&, const cctbx::crystal_orientation&, const double&, const double&, const double&, const double&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/simulation/sim_xfel1.h:113:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 113 | for (int x = 0; x < indices_all.size(); ++x){ | ~~^~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/simulation/sim_xfel1.h: In member function ‘scitbx::af::versa > rstbx::xfel1::raw_diffraction(scitbx::af::shared, scitbx::af::versa >, const size_t&, const double&, const double&, const double&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/simulation/sim_xfel1.h:178:30: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] 178 | for (int mcount=0; mcount::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 230 | for (int isel = 0; isel < selected.size(); ++isel){ | ~~~~~^~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/simulation/sim_xfel1.h:231:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 231 | for (int imos = 0; imos < mosaic_perturbations.size(); ++imos){ | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:307, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa_plain.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/flex_types.h:7, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/simulation/sim_xfel1.h:4: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/detail/push_back_etc.h: In member function ‘void scitbx::af::shared_plain::resize(const size_type&) [with ElementType = scitbx::vec3]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/detail/push_back_etc.h:175:15: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] 175 | resize(new_size, ElementType()); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/detail/push_back_etc.h:165:12: note: by argument 3 of type ‘const scitbx::vec3&’ to ‘void scitbx::af::shared_plain::resize(const size_type&, const ElementType&) [with ElementType = scitbx::vec3]’ declared here 165 | void resize(size_type const& new_size, ElementType const& x) { | ^~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/detail/push_back_etc.h:175:26: note: ‘’ declared here 175 | resize(new_size, ElementType()); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/detail/push_back_etc.h: In member function ‘void scitbx::af::shared_plain::resize(const size_type&) [with ElementType = cctbx::crystal_orientation]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/detail/push_back_etc.h:175:15: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] 175 | resize(new_size, ElementType()); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/detail/push_back_etc.h:165:12: note: by argument 3 of type ‘const cctbx::crystal_orientation&’ to ‘void scitbx::af::shared_plain::resize(const size_type&, const ElementType&) [with ElementType = cctbx::crystal_orientation]’ declared here 165 | void resize(size_type const& new_size, ElementType const& x) { | ^~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/detail/push_back_etc.h:175:26: note: ‘’ declared here 175 | resize(new_size, ElementType()); | ^~~~~~~~~~~~~ g++ -o lib/rstbx_simage_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=rstbx_simage_ext.so.0 rstbx/simage/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lrstbx -lann-cctbx -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/rstbx_simage_ext.so.0.0.1' 'lib/rstbx_simage_ext.so.0'->'lib/rstbx_simage_ext.so.0.0.1' 'lib/rstbx_simage_ext.so'->'lib/rstbx_simage_ext.so.0.0.1' g++ -o scitbx/array_family/boost_python/flex_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/rstbx_integration_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=rstbx_integration_ext.so.0 rstbx/apps/integration_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lann-cctbx -lann_adaptor -lspotfinder -lrstbx -lann-cctbx -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm g++ -o lib/rstbx_array_family_flex_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=rstbx_array_family_flex_ext.so.0 rstbx/array_family/ext.o rstbx/array_family/flex_rstbx_arrays.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lrstbx -lann-cctbx -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/rstbx_integration_ext.so.0.0.1' 'lib/rstbx_integration_ext.so.0'->'lib/rstbx_integration_ext.so.0.0.1' 'lib/rstbx_integration_ext.so'->'lib/rstbx_integration_ext.so.0.0.1' Create symlinks for: 'lib/rstbx_array_family_flex_ext.so.0.0.1' 'lib/rstbx_array_family_flex_ext.so.0'->'lib/rstbx_array_family_flex_ext.so.0.0.1' 'lib/rstbx_array_family_flex_ext.so'->'lib/rstbx_array_family_flex_ext.so.0.0.1' g++ -o scitbx/array_family/boost_python/flex_grid.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_grid.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/array_family/boost_python/flex_bool.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_bool.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/rstbx_simulation_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=rstbx_simulation_ext.so.0 rstbx/simulation/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lrstbx -lann-cctbx -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/rstbx_simulation_ext.so.0.0.1' 'lib/rstbx_simulation_ext.so.0'->'lib/rstbx_simulation_ext.so.0.0.1' 'lib/rstbx_simulation_ext.so'->'lib/rstbx_simulation_ext.so.0.0.1' g++ -o scitbx/array_family/boost_python/flex_size_t.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/rstbx_symmetry_constraints_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=rstbx_symmetry_constraints_ext.so.0 rstbx/symmetry/constraints/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lrstbx -lann-cctbx -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/rstbx_symmetry_constraints_ext.so.0.0.1' 'lib/rstbx_symmetry_constraints_ext.so.0'->'lib/rstbx_symmetry_constraints_ext.so.0.0.1' 'lib/rstbx_symmetry_constraints_ext.so'->'lib/rstbx_symmetry_constraints_ext.so.0.0.1' g++ -o scitbx/array_family/boost_python/flex_int.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_int.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/rstbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=rstbx_ext.so.0 rstbx/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lrstbx -lann-cctbx -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/rstbx_ext.so.0.0.1' 'lib/rstbx_ext.so.0'->'lib/rstbx_ext.so.0.0.1' 'lib/rstbx_ext.so'->'lib/rstbx_ext.so.0.0.1' g++ -o scitbx/array_family/boost_python/flex_float.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_float.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp: In member function ‘const char* scitbx::af::boost_python::cost_of_m_handle_in_af_shared::operator()(unsigned int, unsigned int)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:367:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 367 | for(int n=0; n < n_repeats; ++n) { | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:375:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 375 | for(int n=0; n < n_repeats; ++n) { | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:383:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 383 | for(int n=0; n < n_repeats; ++n) { | ~~^~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:31, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/selections.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:2: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/selections.h: In instantiation of ‘scitbx::af::shared scitbx::af::reindexing_array(std::size_t, const const_ref&) [with IntType = int; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:544:7: required from here 544 | reindexing_array, | ^~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/selections.h:156:35: warning: comparison of integer expressions of different signedness: ‘const int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 156 | SCITBX_ASSERT(iselection[i] < selectee_size); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/selections.h:156:7: note: in expansion of macro ‘SCITBX_ASSERT’ 156 | SCITBX_ASSERT(iselection[i] < selectee_size); | ^~~~~~~~~~~~~ In file included from /usr/include/boost/assert.hpp:64, from /usr/include/boost/smart_ptr/shared_ptr.hpp:23, from /usr/include/boost/shared_ptr.hpp:17, from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, from /usr/include/boost/python/converter/arg_to_python.hpp:15, from /usr/include/boost/python/call.hpp:15, from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object.hpp:9, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/c_grid_flex_conversions.h:10, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:10: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::af::tiny]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:84:46: required from here 84 | tuple_mapping_fixed_size >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::af::tiny]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:85:45: required from here 85 | tuple_mapping_fixed_size >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::af::tiny]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:86:36: required from here 86 | tuple_mapping_fixed_size(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::af::tiny]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:87:36: required from here 87 | tuple_mapping_fixed_size(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::af::tiny]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:88:36: required from here 88 | tuple_mapping_fixed_size(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::af::tiny]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:89:36: required from here 89 | tuple_mapping_fixed_size(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::af::tiny]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:90:37: required from here 90 | tuple_mapping_fixed_size(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::af::tiny]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:91:39: required from here 91 | tuple_mapping_fixed_size(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::af::tiny]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:92:39: required from here 92 | tuple_mapping_fixed_size(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::af::tiny]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:93:39: required from here 93 | tuple_mapping_fixed_size(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::af::tiny]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:94:39: required from here 94 | tuple_mapping_fixed_size(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::af::tiny]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:95:39: required from here 95 | tuple_mapping_fixed_size(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::tiny, 2>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::tiny, 2>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::tiny, 2>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::af::tiny, 2>]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:96:53: required from here 96 | tuple_mapping_fixed_size >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::tiny, 3>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::tiny, 3>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::tiny, 3>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::af::tiny, 3>]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:97:53: required from here 97 | tuple_mapping_fixed_size >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::tiny, 4>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::tiny, 4>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::tiny, 4>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::af::tiny, 4>]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:98:53: required from here 98 | tuple_mapping_fixed_size >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:290:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_capacity::tuple_mapping_fixed_capacity() [with ContainerType = scitbx::af::small]’ 290 | tuple_mapping< | ^~~~~~~~~~~~~~ 291 | ContainerType, | ~~~~~~~~~~~~~~ 292 | fixed_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:100:50: required from here 100 | tuple_mapping_fixed_capacity >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:290:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_capacity::tuple_mapping_fixed_capacity() [with ContainerType = scitbx::af::small]’ 290 | tuple_mapping< | ^~~~~~~~~~~~~~ 291 | ContainerType, | ~~~~~~~~~~~~~~ 292 | fixed_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:101:51: required from here 101 | tuple_mapping_fixed_capacity >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:290:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_capacity::tuple_mapping_fixed_capacity() [with ContainerType = scitbx::af::small]’ 290 | tuple_mapping< | ^~~~~~~~~~~~~~ 291 | ContainerType, | ~~~~~~~~~~~~~~ 292 | fixed_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:102:55: required from here 102 | tuple_mapping_fixed_capacity >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:290:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_capacity::tuple_mapping_fixed_capacity() [with ContainerType = scitbx::af::small]’ 290 | tuple_mapping< | ^~~~~~~~~~~~~~ 291 | ContainerType, | ~~~~~~~~~~~~~~ 292 | fixed_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:103:55: required from here 103 | tuple_mapping_fixed_capacity >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:290:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_capacity::tuple_mapping_fixed_capacity() [with ContainerType = scitbx::af::small]’ 290 | tuple_mapping< | ^~~~~~~~~~~~~~ 291 | ContainerType, | ~~~~~~~~~~~~~~ 292 | fixed_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:104:55: required from here 104 | tuple_mapping_fixed_capacity >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:290:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_capacity::tuple_mapping_fixed_capacity() [with ContainerType = scitbx::af::small]’ 290 | tuple_mapping< | ^~~~~~~~~~~~~~ 291 | ContainerType, | ~~~~~~~~~~~~~~ 292 | fixed_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:105:58: required from here 105 | tuple_mapping_fixed_capacity >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:290:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_capacity::tuple_mapping_fixed_capacity() [with ContainerType = scitbx::af::small]’ 290 | tuple_mapping< | ^~~~~~~~~~~~~~ 291 | ContainerType, | ~~~~~~~~~~~~~~ 292 | fixed_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:106:53: required from here 106 | tuple_mapping_fixed_capacity >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:290:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_capacity::tuple_mapping_fixed_capacity() [with ContainerType = scitbx::af::small]’ 290 | tuple_mapping< | ^~~~~~~~~~~~~~ 291 | ContainerType, | ~~~~~~~~~~~~~~ 292 | fixed_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:107:53: required from here 107 | tuple_mapping_fixed_capacity >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:290:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_capacity::tuple_mapping_fixed_capacity() [with ContainerType = scitbx::af::small]’ 290 | tuple_mapping< | ^~~~~~~~~~~~~~ 291 | ContainerType, | ~~~~~~~~~~~~~~ 292 | fixed_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:108:53: required from here 108 | tuple_mapping_fixed_capacity >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:290:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_capacity::tuple_mapping_fixed_capacity() [with ContainerType = scitbx::af::small]’ 290 | tuple_mapping< | ^~~~~~~~~~~~~~ 291 | ContainerType, | ~~~~~~~~~~~~~~ 292 | fixed_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:110:54: required from here 110 | tuple_mapping_fixed_capacity >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::af::tiny]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:112:46: required from here 112 | tuple_mapping_fixed_size >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::af::tiny]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:113:46: required from here 113 | tuple_mapping_fixed_size >(); // scitbx/math/golay.h | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::af::tiny]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:115:49: required from here 115 | tuple_mapping_fixed_size >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::af::tiny]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:117:50: required from here 117 | tuple_mapping_fixed_size >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::af::tiny]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:118:50: required from here 118 | tuple_mapping_fixed_size >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::af::tiny]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:119:50: required from here 119 | tuple_mapping_fixed_size >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::af::tiny]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:120:50: required from here 120 | tuple_mapping_fixed_size >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::af::tiny]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:122:53: required from here 122 | tuple_mapping_fixed_size >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::af::tiny]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:123:53: required from here 123 | tuple_mapping_fixed_size >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::af::tiny]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:124:53: required from here 124 | tuple_mapping_fixed_size >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::vec3; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::vec3; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::vec3; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::vec3]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:127:51: required from here 127 | tuple_mapping_fixed_size >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::vec3; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::vec3; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::vec3; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::vec3]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:128:52: required from here 128 | tuple_mapping_fixed_size >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::vec3; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::vec3; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::vec3; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::vec3]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:129:42: required from here 129 | tuple_mapping_fixed_size >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::mat3; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::mat3; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::mat3; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::mat3]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:130:42: required from here 130 | tuple_mapping_fixed_size >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::vec3; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::vec3; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::vec3; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::vec3]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:131:45: required from here 131 | tuple_mapping_fixed_size >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::vec3 >; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::vec3 >; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::vec3 >; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::vec3 >]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:132:63: required from here 132 | tuple_mapping_fixed_size > >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::mat3; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::mat3; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::mat3; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::mat3]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:133:45: required from here 133 | tuple_mapping_fixed_size >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::sym_mat3; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::sym_mat3; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::sym_mat3; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::sym_mat3]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:134:49: required from here 134 | tuple_mapping_fixed_size >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::vec2; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::vec2; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::vec2; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::vec2]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:135:51: required from here 135 | tuple_mapping_fixed_size >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::vec2; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::vec2; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::vec2; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::vec2]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:136:52: required from here 136 | tuple_mapping_fixed_size >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::vec2; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::vec2; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::vec2; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::vec2]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:137:42: required from here 137 | tuple_mapping_fixed_size >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::mat2; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::mat2; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::mat2; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::mat2]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:138:42: required from here 138 | tuple_mapping_fixed_size >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::vec2; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::vec2; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::vec2; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::vec2]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:139:45: required from here 139 | tuple_mapping_fixed_size >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::mat2; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::mat2; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::mat2; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::mat2]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:140:45: required from here 140 | tuple_mapping_fixed_size >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::sym_mat2; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::sym_mat2; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::sym_mat2; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::sym_mat2]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:141:49: required from here 141 | tuple_mapping_fixed_size >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::vec3 >; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::vec3 >; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::vec3 >; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::vec3 >]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:143:60: required from here 143 | tuple_mapping_fixed_size > >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::mat3 >; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::mat3 >; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::mat3 >; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::mat3 >]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:144:60: required from here 144 | tuple_mapping_fixed_size > >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::tiny, 2>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::tiny, 2>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::tiny, 2>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::af::tiny, 2>]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:146:54: required from here 146 | tuple_mapping_fixed_size, 2> >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::tiny, 3>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::tiny, 3>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::tiny, 3>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::af::tiny, 3>]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:147:54: required from here 147 | tuple_mapping_fixed_size, 3> >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::tiny, 4>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::tiny, 4>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::tiny, 4>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::af::tiny, 4>]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:148:54: required from here 148 | tuple_mapping_fixed_size, 4> >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::tiny, 2>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::tiny, 2>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::tiny, 2>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::af::tiny, 2>]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:149:54: required from here 149 | tuple_mapping_fixed_size, 2> >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::tiny, 3>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::tiny, 3>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::tiny, 3>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::af::tiny, 3>]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:150:54: required from here 150 | tuple_mapping_fixed_size, 3> >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::tiny, 4>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::tiny, 4>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::tiny, 4>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::af::tiny, 4>]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:151:54: required from here 151 | tuple_mapping_fixed_size, 4> >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:290:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_capacity::tuple_mapping_fixed_capacity() [with ContainerType = scitbx::af::small]’ 290 | tuple_mapping< | ^~~~~~~~~~~~~~ 291 | ContainerType, | ~~~~~~~~~~~~~~ 292 | fixed_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:153:64: required from here 153 | tuple_mapping_fixed_capacity(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::small, 3>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::small, 3>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::small, 3>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:290:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_capacity::tuple_mapping_fixed_capacity() [with ContainerType = scitbx::af::small, 3>]’ 290 | tuple_mapping< | ^~~~~~~~~~~~~~ 291 | ContainerType, | ~~~~~~~~~~~~~~ 292 | fixed_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:154:56: required from here 154 | tuple_mapping_fixed_capacity, 3> >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::small, 2>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::small, 2>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::small, 2>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:290:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_capacity::tuple_mapping_fixed_capacity() [with ContainerType = scitbx::af::small, 2>]’ 290 | tuple_mapping< | ^~~~~~~~~~~~~~ 291 | ContainerType, | ~~~~~~~~~~~~~~ 292 | fixed_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:155:56: required from here 155 | tuple_mapping_fixed_capacity, 2> >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::small, 6>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::small, 6>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::small, 6>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:290:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_capacity::tuple_mapping_fixed_capacity() [with ContainerType = scitbx::af::small, 6>]’ 290 | tuple_mapping< | ^~~~~~~~~~~~~~ 291 | ContainerType, | ~~~~~~~~~~~~~~ 292 | fixed_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:156:59: required from here 156 | tuple_mapping_fixed_capacity, 6> >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::small, 7>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::small, 7>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::small, 7>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:290:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_capacity::tuple_mapping_fixed_capacity() [with ContainerType = scitbx::af::small, 7>]’ 290 | tuple_mapping< | ^~~~~~~~~~~~~~ 291 | ContainerType, | ~~~~~~~~~~~~~~ 292 | fixed_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:157:59: required from here 157 | tuple_mapping_fixed_capacity, 7> >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::small, 8>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::small, 8>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::small, 8>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:290:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_capacity::tuple_mapping_fixed_capacity() [with ContainerType = scitbx::af::small, 8>]’ 290 | tuple_mapping< | ^~~~~~~~~~~~~~ 291 | ContainerType, | ~~~~~~~~~~~~~~ 292 | fixed_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:158:59: required from here 158 | tuple_mapping_fixed_capacity, 8> >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::small, 8>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::small, 8>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::small, 8>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:290:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_capacity::tuple_mapping_fixed_capacity() [with ContainerType = scitbx::af::small, 8>]’ 290 | tuple_mapping< | ^~~~~~~~~~~~~~ 291 | ContainerType, | ~~~~~~~~~~~~~~ 292 | fixed_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:159:59: required from here 159 | tuple_mapping_fixed_capacity, 8> >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/accessors/flex_grid.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/flex_types.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_bool.cpp:1: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h: In member function ‘void scitbx::af::boost_python::detail::getstate_manager::advance(char*)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:43: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:9: note: in expansion of macro ‘SCITBX_ASSERT’ 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); | ^~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/accessors/flex_grid.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/flex_types.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:1: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h: In member function ‘void scitbx::af::boost_python::detail::getstate_manager::advance(char*)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:43: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:9: note: in expansion of macro ‘SCITBX_ASSERT’ 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/byte_str.h: In instantiation of ‘scitbx::af::shared scitbx::af::boost_python::shared_from_byte_str(const boost::python::api::object&) [with ElementType = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:140:3: required from here 131 | def( \ | ~~~^~~ 132 | #pyname"_from_byte_str", \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | shared_from_byte_str, \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 134 | (arg("byte_str"))); \ | ~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/byte_str.h:81:59: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/byte_str.h:81:5: note: in expansion of macro ‘SCITBX_ASSERT’ 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/byte_str.h: In instantiation of ‘scitbx::af::shared scitbx::af::boost_python::shared_from_byte_str(const boost::python::api::object&) [with ElementType = unsigned char]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:141:3: required from here 131 | def( \ | ~~~^~~ 132 | #pyname"_from_byte_str", \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | shared_from_byte_str, \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 134 | (arg("byte_str"))); \ | ~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/byte_str.h:81:59: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/byte_str.h:81:5: note: in expansion of macro ‘SCITBX_ASSERT’ 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/byte_str.h: In instantiation of ‘scitbx::af::shared scitbx::af::boost_python::shared_from_byte_str(const boost::python::api::object&) [with ElementType = short unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:142:3: required from here 131 | def( \ | ~~~^~~ 132 | #pyname"_from_byte_str", \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | shared_from_byte_str, \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 134 | (arg("byte_str"))); \ | ~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/byte_str.h:81:59: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/byte_str.h:81:5: note: in expansion of macro ‘SCITBX_ASSERT’ 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/byte_str.h: In instantiation of ‘scitbx::af::shared scitbx::af::boost_python::shared_from_byte_str(const boost::python::api::object&) [with ElementType = unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:143:3: required from here 131 | def( \ | ~~~^~~ 132 | #pyname"_from_byte_str", \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | shared_from_byte_str, \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 134 | (arg("byte_str"))); \ | ~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/byte_str.h:81:59: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/byte_str.h:81:5: note: in expansion of macro ‘SCITBX_ASSERT’ 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::first_index_a_s(const f_t&, e_t) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:963:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 963 | def("first_index", first_index_a_s); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:140:3: required from here 105 | flex_wrapper::integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:616:41: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = long unsigned int]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] 616 | return first_index(a, std::bind2nd(std::equal_to(), x)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/15/bits/stl_function.h:1480, from /usr/include/c++/15/string:51, from /usr/include/boost/core/demangle.hpp:14, from /usr/include/boost/core/typeinfo.hpp:135, from /usr/include/boost/function/function_base.hpp:16, from /usr/include/boost/function/function_template.hpp:14, from /usr/include/boost/function/function0.hpp:10, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/to_python_value.hpp:14, from /usr/include/boost/python/default_call_policies.hpp:10, from /usr/include/boost/python/make_function.hpp:10, from /usr/include/boost/python/def.hpp:11, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:6: /usr/include/c++/15/backward/binders.h:172:5: note: declared here 172 | bind2nd(const _Operation& __fn, const _Tp& __x) | ^~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::last_index_a_s(const f_t&, e_t) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:964:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 964 | def("last_index", last_index_a_s); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:140:3: required from here 105 | flex_wrapper::integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:621:40: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = long unsigned int]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] 621 | return last_index(a, std::bind2nd(std::equal_to(), x)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/15/backward/binders.h:172:5: note: declared here 172 | bind2nd(const _Operation& __fn, const _Tp& __x) | ^~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::first_index_a_s(const f_t&, e_t) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = bool]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_bool.cpp:429:8: required from here 429 | def("first_index", f_w::first_index_a_s, (arg("value"))); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:616:41: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = bool]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] 616 | return first_index(a, std::bind2nd(std::equal_to(), x)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/15/bits/stl_function.h:1480, from /usr/include/c++/15/string:51, from /usr/include/boost/core/demangle.hpp:14, from /usr/include/boost/core/typeinfo.hpp:135, from /usr/include/boost/function/function_base.hpp:16, from /usr/include/boost/function/function_template.hpp:14, from /usr/include/boost/function/function0.hpp:10, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/to_python_value.hpp:14, from /usr/include/boost/python/default_call_policies.hpp:10, from /usr/include/boost/python/make_function.hpp:10, from /usr/include/boost/python/def.hpp:11, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:6: /usr/include/c++/15/backward/binders.h:172:5: note: declared here 172 | bind2nd(const _Operation& __fn, const _Tp& __x) | ^~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::last_index_a_s(const f_t&, e_t) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = bool]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_bool.cpp:430:8: required from here 430 | def("last_index", f_w::last_index_a_s, (arg("value"))); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:621:40: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = bool]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] 621 | return last_index(a, std::bind2nd(std::equal_to(), x)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/15/backward/binders.h:172:5: note: declared here 172 | bind2nd(const _Operation& __fn, const _Tp& __x) | ^~~~~~~ In file included from /usr/include/boost/assert.hpp:64, from /usr/include/boost/optional/optional.hpp:25, from /usr/include/boost/optional.hpp:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref_reductions.h:8, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small_plain.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/accessors/flex_grid.h:5: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 769 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 770 | shared_plain, | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 771 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 772 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_bool.cpp:367:15: required from here 367 | f_w::plain("bool") | ~~~~~~~~~~^~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 773 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 774 | shared, | ~~~~~~~~~~~~~~~~~~~~ 775 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 776 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_bool.cpp:367:15: required from here 367 | f_w::plain("bool") | ~~~~~~~~~~^~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:18: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = bool]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 202 | return copy_slice(self, slices_simple); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 228 | return boost::python::object(getitem_nd_slice(a.const_ref(), slices)); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_bool.cpp:367:15: required from here 367 | f_w::plain("bool") | ~~~~~~~~~~^~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 89 | for (int i=0;i >&, small, const const_ref >&) [with T = bool]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_bool.cpp:367:15: required from here 367 | f_w::plain("bool") | ~~~~~~~~~~^~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 114 | for (int i=0;i >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = bool]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = bool]’ 119 | detail::copy_to_slice_detail(self, slices, other); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_bool.cpp:367:15: required from here 367 | f_w::plain("bool") | ~~~~~~~~~~^~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 70 | if (idx_a[j] < slices[j].stop) break; In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/accessors/flex_grid.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/flex_types.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_float.cpp:1: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h: In member function ‘void scitbx::af::boost_python::detail::getstate_manager::advance(char*)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:43: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:9: note: in expansion of macro ‘SCITBX_ASSERT’ 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); | ^~~~~~~~~~~~~ In file included from /usr/include/boost/assert.hpp:64, from /usr/include/boost/optional/optional.hpp:25, from /usr/include/boost/optional.hpp:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref_reductions.h:8, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small_plain.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/accessors/flex_grid.h:5: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 769 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 770 | shared_plain, | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 771 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 772 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:140:3: required from here 105 | flex_wrapper::integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 773 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 774 | shared, | ~~~~~~~~~~~~~~~~~~~~ 775 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 776 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:140:3: required from here 105 | flex_wrapper::integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 769 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 770 | shared_plain, | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 771 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 772 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:141:3: required from here 105 | flex_wrapper::integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 773 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 774 | shared, | ~~~~~~~~~~~~~~~~~~~~ 775 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 776 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:141:3: required from here 105 | flex_wrapper::integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 769 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 770 | shared_plain, | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 771 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 772 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:142:3: required from here 105 | flex_wrapper::integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 773 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 774 | shared, | ~~~~~~~~~~~~~~~~~~~~ 775 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 776 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:142:3: required from here 105 | flex_wrapper::integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::first_index_a_s(const f_t&, e_t) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = float]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:963:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 963 | def("first_index", first_index_a_s); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1020 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_float.cpp:12:33: required from here 12 | flex_wrapper::numeric("float", boost::python::scope()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:616:41: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = float]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] 616 | return first_index(a, std::bind2nd(std::equal_to(), x)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/15/bits/stl_function.h:1480, from /usr/include/c++/15/string:51, from /usr/include/boost/core/demangle.hpp:14, from /usr/include/boost/core/typeinfo.hpp:135, from /usr/include/boost/function/function_base.hpp:16, from /usr/include/boost/function/function_template.hpp:14, from /usr/include/boost/function/function0.hpp:10, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/to_python_value.hpp:14, from /usr/include/boost/python/default_call_policies.hpp:10, from /usr/include/boost/python/make_function.hpp:10, from /usr/include/boost/python/def.hpp:11, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:6: /usr/include/c++/15/backward/binders.h:172:5: note: declared here 172 | bind2nd(const _Operation& __fn, const _Tp& __x) | ^~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::last_index_a_s(const f_t&, e_t) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = float]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:964:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 964 | def("last_index", last_index_a_s); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1020 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_float.cpp:12:33: required from here 12 | flex_wrapper::numeric("float", boost::python::scope()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:621:40: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = float]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] 621 | return last_index(a, std::bind2nd(std::equal_to(), x)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/15/backward/binders.h:172:5: note: declared here 172 | bind2nd(const _Operation& __fn, const _Tp& __x) | ^~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 769 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 770 | shared_plain, | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 771 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 772 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:143:3: required from here 105 | flex_wrapper::integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 773 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 774 | shared, | ~~~~~~~~~~~~~~~~~~~~ 775 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 776 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:143:3: required from here 105 | flex_wrapper::integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:18: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 202 | return copy_slice(self, slices_simple); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 228 | return boost::python::object(getitem_nd_slice(a.const_ref(), slices)); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:140:3: required from here 105 | flex_wrapper::integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 89 | for (int i=0;i >&, small, const const_ref >&) [with T = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:140:3: required from here 105 | flex_wrapper::integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 114 | for (int i=0;i > scitbx::af::copy_slice(const const_ref >&, small) [with T = unsigned char]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 202 | return copy_slice(self, slices_simple); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 228 | return boost::python::object(getitem_nd_slice(a.const_ref(), slices)); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:141:3: required from here 105 | flex_wrapper::integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 89 | for (int i=0;i >&, small, const const_ref >&) [with T = unsigned char]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:141:3: required from here 105 | flex_wrapper::integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 114 | for (int i=0;i > scitbx::af::copy_slice(const const_ref >&, small) [with T = short unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 202 | return copy_slice(self, slices_simple); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 228 | return boost::python::object(getitem_nd_slice(a.const_ref(), slices)); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:142:3: required from here 105 | flex_wrapper::integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 89 | for (int i=0;i >&, small, const const_ref >&) [with T = short unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:142:3: required from here 105 | flex_wrapper::integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 114 | for (int i=0;i > scitbx::af::copy_slice(const const_ref >&, small) [with T = unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 202 | return copy_slice(self, slices_simple); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 228 | return boost::python::object(getitem_nd_slice(a.const_ref(), slices)); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:143:3: required from here 105 | flex_wrapper::integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 89 | for (int i=0;i >&, small, const const_ref >&) [with T = unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:143:3: required from here 105 | flex_wrapper::integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 114 | for (int i=0;i >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = long unsigned int]’ 119 | detail::copy_to_slice_detail(self, slices, other); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:140:3: required from here 105 | flex_wrapper::integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 70 | if (idx_a[j] < slices[j].stop) break; In file included from /usr/include/boost/assert.hpp:64, from /usr/include/boost/optional/optional.hpp:25, from /usr/include/boost/optional.hpp:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref_reductions.h:8, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small_plain.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/accessors/flex_grid.h:5: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 769 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 770 | shared_plain, | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 771 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 772 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1020 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_float.cpp:12:33: required from here 12 | flex_wrapper::numeric("float", boost::python::scope()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 773 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 774 | shared, | ~~~~~~~~~~~~~~~~~~~~ 775 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 776 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1020 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_float.cpp:12:33: required from here 12 | flex_wrapper::numeric("float", boost::python::scope()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::detail::copy_to_slice_detail(scitbx::af::versa >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = unsigned char]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = unsigned char]’ 119 | detail::copy_to_slice_detail(self, slices, other); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:141:3: required from here 105 | flex_wrapper::integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 70 | if (idx_a[j] < slices[j].stop) break; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::detail::copy_to_slice_detail(scitbx::af::versa >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = short unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = short unsigned int]’ 119 | detail::copy_to_slice_detail(self, slices, other); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:142:3: required from here 105 | flex_wrapper::integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 70 | if (idx_a[j] < slices[j].stop) break; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::detail::copy_to_slice_detail(scitbx::af::versa >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = unsigned int]’ 119 | detail::copy_to_slice_detail(self, slices, other); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:143:3: required from here 105 | flex_wrapper::integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 70 | if (idx_a[j] < slices[j].stop) break; In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:18: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = float]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 202 | return copy_slice(self, slices_simple); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 228 | return boost::python::object(getitem_nd_slice(a.const_ref(), slices)); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1020 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_float.cpp:12:33: required from here 12 | flex_wrapper::numeric("float", boost::python::scope()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 89 | for (int i=0;i >&, small, const const_ref >&) [with T = float]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1020 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_float.cpp:12:33: required from here 12 | flex_wrapper::numeric("float", boost::python::scope()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 114 | for (int i=0;i >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = float]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = float]’ 119 | detail::copy_to_slice_detail(self, slices, other); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1020 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_float.cpp:12:33: required from here 12 | flex_wrapper::numeric("float", boost::python::scope()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 70 | if (idx_a[j] < slices[j].stop) break; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/byte_str.h: In instantiation of ‘scitbx::af::shared scitbx::af::boost_python::shared_from_byte_str(const boost::python::api::object&) [with ElementType = int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:319:3: required from here 311 | def( \ | ~~~^~~ 312 | #pyname"_from_byte_str", \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 313 | shared_from_byte_str, \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 314 | (arg("byte_str"))); \ | ~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/byte_str.h:81:59: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/byte_str.h:81:5: note: in expansion of macro ‘SCITBX_ASSERT’ 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/byte_str.h: In instantiation of ‘scitbx::af::shared scitbx::af::boost_python::shared_from_byte_str(const boost::python::api::object&) [with ElementType = long int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:320:3: required from here 311 | def( \ | ~~~^~~ 312 | #pyname"_from_byte_str", \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 313 | shared_from_byte_str, \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 314 | (arg("byte_str"))); \ | ~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/byte_str.h:81:59: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/byte_str.h:81:5: note: in expansion of macro ‘SCITBX_ASSERT’ 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/byte_str.h: In instantiation of ‘scitbx::af::shared scitbx::af::boost_python::shared_from_byte_str(const boost::python::api::object&) [with ElementType = signed char]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:321:3: required from here 311 | def( \ | ~~~^~~ 312 | #pyname"_from_byte_str", \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 313 | shared_from_byte_str, \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 314 | (arg("byte_str"))); \ | ~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/byte_str.h:81:59: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/byte_str.h:81:5: note: in expansion of macro ‘SCITBX_ASSERT’ 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/byte_str.h: In instantiation of ‘scitbx::af::shared scitbx::af::boost_python::shared_from_byte_str(const boost::python::api::object&) [with ElementType = short int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:322:3: required from here 311 | def( \ | ~~~^~~ 312 | #pyname"_from_byte_str", \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 313 | shared_from_byte_str, \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 314 | (arg("byte_str"))); \ | ~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/byte_str.h:81:59: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/byte_str.h:81:5: note: in expansion of macro ‘SCITBX_ASSERT’ 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::first_index_a_s(const f_t&, e_t) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:963:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 963 | def("first_index", first_index_a_s); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1048 | return integer(python_name, flex_root_scope); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:319:3: required from here 242 | flex_wrapper::signed_integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:616:41: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = int]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] 616 | return first_index(a, std::bind2nd(std::equal_to(), x)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/15/bits/stl_function.h:1480, from /usr/include/c++/15/string:51, from /usr/include/boost/core/demangle.hpp:14, from /usr/include/boost/core/typeinfo.hpp:135, from /usr/include/boost/function/function_base.hpp:16, from /usr/include/boost/function/function_template.hpp:14, from /usr/include/boost/function/function0.hpp:10, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/to_python_value.hpp:14, from /usr/include/boost/python/default_call_policies.hpp:10, from /usr/include/boost/python/make_function.hpp:10, from /usr/include/boost/python/def.hpp:11, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:6: /usr/include/c++/15/backward/binders.h:172:5: note: declared here 172 | bind2nd(const _Operation& __fn, const _Tp& __x) | ^~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::last_index_a_s(const f_t&, e_t) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:964:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 964 | def("last_index", last_index_a_s); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1048 | return integer(python_name, flex_root_scope); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:319:3: required from here 242 | flex_wrapper::signed_integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:621:40: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = int]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] 621 | return last_index(a, std::bind2nd(std::equal_to(), x)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/15/backward/binders.h:172:5: note: declared here 172 | bind2nd(const _Operation& __fn, const _Tp& __x) | ^~~~~~~ In file included from /usr/include/boost/assert.hpp:64, from /usr/include/boost/optional/optional.hpp:25, from /usr/include/boost/optional.hpp:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref_reductions.h:8, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small_plain.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/accessors/flex_grid.h:5: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 769 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 770 | shared_plain, | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 771 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 772 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1048 | return integer(python_name, flex_root_scope); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:319:3: required from here 242 | flex_wrapper::signed_integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 773 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 774 | shared, | ~~~~~~~~~~~~~~~~~~~~ 775 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 776 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1048 | return integer(python_name, flex_root_scope); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:319:3: required from here 242 | flex_wrapper::signed_integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 769 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 770 | shared_plain, | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 771 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 772 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1048 | return integer(python_name, flex_root_scope); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:320:3: required from here 242 | flex_wrapper::signed_integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 773 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 774 | shared, | ~~~~~~~~~~~~~~~~~~~~ 775 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 776 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1048 | return integer(python_name, flex_root_scope); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:320:3: required from here 242 | flex_wrapper::signed_integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 769 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 770 | shared_plain, | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 771 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 772 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1048 | return integer(python_name, flex_root_scope); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:321:3: required from here 242 | flex_wrapper::signed_integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 773 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 774 | shared, | ~~~~~~~~~~~~~~~~~~~~ 775 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 776 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1048 | return integer(python_name, flex_root_scope); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:321:3: required from here 242 | flex_wrapper::signed_integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 769 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 770 | shared_plain, | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 771 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 772 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1048 | return integer(python_name, flex_root_scope); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:322:3: required from here 242 | flex_wrapper::signed_integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 773 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 774 | shared, | ~~~~~~~~~~~~~~~~~~~~ 775 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 776 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1048 | return integer(python_name, flex_root_scope); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:322:3: required from here 242 | flex_wrapper::signed_integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:18: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 202 | return copy_slice(self, slices_simple); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 228 | return boost::python::object(getitem_nd_slice(a.const_ref(), slices)); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1048 | return integer(python_name, flex_root_scope); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:319:3: required from here 242 | flex_wrapper::signed_integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 89 | for (int i=0;i >&, small, const const_ref >&) [with T = int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1048 | return integer(python_name, flex_root_scope); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:319:3: required from here 242 | flex_wrapper::signed_integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 114 | for (int i=0;i > scitbx::af::copy_slice(const const_ref >&, small) [with T = long int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 202 | return copy_slice(self, slices_simple); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 228 | return boost::python::object(getitem_nd_slice(a.const_ref(), slices)); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1048 | return integer(python_name, flex_root_scope); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:320:3: required from here 242 | flex_wrapper::signed_integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 89 | for (int i=0;i >&, small, const const_ref >&) [with T = long int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1048 | return integer(python_name, flex_root_scope); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:320:3: required from here 242 | flex_wrapper::signed_integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 114 | for (int i=0;i > scitbx::af::copy_slice(const const_ref >&, small) [with T = signed char]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 202 | return copy_slice(self, slices_simple); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 228 | return boost::python::object(getitem_nd_slice(a.const_ref(), slices)); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1048 | return integer(python_name, flex_root_scope); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:321:3: required from here 242 | flex_wrapper::signed_integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 89 | for (int i=0;i >&, small, const const_ref >&) [with T = signed char]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1048 | return integer(python_name, flex_root_scope); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:321:3: required from here 242 | flex_wrapper::signed_integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 114 | for (int i=0;i > scitbx::af::copy_slice(const const_ref >&, small) [with T = short int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 202 | return copy_slice(self, slices_simple); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 228 | return boost::python::object(getitem_nd_slice(a.const_ref(), slices)); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1048 | return integer(python_name, flex_root_scope); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:322:3: required from here 242 | flex_wrapper::signed_integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 89 | for (int i=0;i >&, small, const const_ref >&) [with T = short int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1048 | return integer(python_name, flex_root_scope); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:322:3: required from here 242 | flex_wrapper::signed_integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 114 | for (int i=0;i >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = int]’ 119 | detail::copy_to_slice_detail(self, slices, other); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1048 | return integer(python_name, flex_root_scope); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:319:3: required from here 242 | flex_wrapper::signed_integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 70 | if (idx_a[j] < slices[j].stop) break; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::detail::copy_to_slice_detail(scitbx::af::versa >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = long int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = long int]’ 119 | detail::copy_to_slice_detail(self, slices, other); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1048 | return integer(python_name, flex_root_scope); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:320:3: required from here 242 | flex_wrapper::signed_integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 70 | if (idx_a[j] < slices[j].stop) break; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::detail::copy_to_slice_detail(scitbx::af::versa >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = signed char]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = signed char]’ 119 | detail::copy_to_slice_detail(self, slices, other); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1048 | return integer(python_name, flex_root_scope); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:321:3: required from here 242 | flex_wrapper::signed_integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 70 | if (idx_a[j] < slices[j].stop) break; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::detail::copy_to_slice_detail(scitbx::af::versa >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = short int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = short int]’ 119 | detail::copy_to_slice_detail(self, slices, other); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1048 | return integer(python_name, flex_root_scope); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:322:3: required from here 242 | flex_wrapper::signed_integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 70 | if (idx_a[j] < slices[j].stop) break; g++ -o scitbx/array_family/boost_python/flex_double.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_double.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/accessors/flex_grid.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/flex_types.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:1: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h: In member function ‘void scitbx::af::boost_python::detail::getstate_manager::advance(char*)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:43: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:9: note: in expansion of macro ‘SCITBX_ASSERT’ 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_double.cpp: In function ‘scitbx::af::flex::type* scitbx::af::{anonymous}::from_list_or_tuple_of_lists_or_tuples(PyObject*)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:138:38: warning: comparison of integer expressions of different signedness: ‘Py_ssize_t’ {aka ‘long int’} and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 138 | if (PyList_GET_SIZE(row) != n_columns) { | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:154:39: warning: comparison of integer expressions of different signedness: ‘Py_ssize_t’ {aka ‘long int’} and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 154 | if (PyTuple_GET_SIZE(row) != n_columns) { | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:190:38: warning: comparison of integer expressions of different signedness: ‘Py_ssize_t’ {aka ‘long int’} and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 190 | if (PyList_GET_SIZE(row) != n_columns) { | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:206:39: warning: comparison of integer expressions of different signedness: ‘Py_ssize_t’ {aka ‘long int’} and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 206 | if (PyTuple_GET_SIZE(row) != n_columns) { | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_double.cpp: In function ‘std::string scitbx::af::{anonymous}::mathematica_form(const scitbx::af::const_ref >&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:452:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::small_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 452 | for (int i=1; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 454 | if (i != indices.size() - 1) o << ","; | ~~^~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:7: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/matrix/norms.h: In instantiation of ‘FloatType scitbx::matrix::norm_1(const scitbx::af::const_ref&) [with FloatType = double]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:365:26: required from here 365 | return matrix::norm_1(self); | ~~~~~~~~~~~~~~^~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/matrix/norms.h:25:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 25 | for (int i=0; i scitbx::af::boost_python::shared_from_byte_str(const boost::python::api::object&) [with ElementType = double]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:536:8: required from here 536 | def( | ~~~^ 537 | "double_from_byte_str", | ~~~~~~~~~~~~~~~~~~~~~~~ 538 | shared_from_byte_str, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 539 | (arg("byte_str"))); | ~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/byte_str.h:81:59: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/byte_str.h:81:5: note: in expansion of macro ‘SCITBX_ASSERT’ 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::first_index_a_s(const f_t&, e_t) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = double]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:963:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 963 | def("first_index", first_index_a_s); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1020 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:477:42: required from here 477 | f_w::class_f_t class_f_t(f_w::numeric("double", scope())); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:616:41: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = double]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] 616 | return first_index(a, std::bind2nd(std::equal_to(), x)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/15/bits/stl_function.h:1480, from /usr/include/c++/15/string:51, from /usr/include/boost/core/demangle.hpp:14, from /usr/include/boost/core/typeinfo.hpp:135, from /usr/include/boost/function/function_base.hpp:16, from /usr/include/boost/function/function_template.hpp:14, from /usr/include/boost/function/function0.hpp:10, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/to_python_value.hpp:14, from /usr/include/boost/python/default_call_policies.hpp:10, from /usr/include/boost/python/make_function.hpp:10, from /usr/include/boost/python/def.hpp:11, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:6: /usr/include/c++/15/backward/binders.h:172:5: note: declared here 172 | bind2nd(const _Operation& __fn, const _Tp& __x) | ^~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::last_index_a_s(const f_t&, e_t) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = double]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:964:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 964 | def("last_index", last_index_a_s); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1020 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:477:42: required from here 477 | f_w::class_f_t class_f_t(f_w::numeric("double", scope())); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:621:40: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = double]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] 621 | return last_index(a, std::bind2nd(std::equal_to(), x)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/15/backward/binders.h:172:5: note: declared here 172 | bind2nd(const _Operation& __fn, const _Tp& __x) | ^~~~~~~ In file included from /usr/include/boost/assert.hpp:64, from /usr/include/boost/optional/optional.hpp:25, from /usr/include/boost/optional.hpp:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref_reductions.h:8, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small_plain.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/accessors/flex_grid.h:5: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 769 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 770 | shared_plain, | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 771 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 772 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1020 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:477:42: required from here 477 | f_w::class_f_t class_f_t(f_w::numeric("double", scope())); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 773 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 774 | shared, | ~~~~~~~~~~~~~~~~~~~~ 775 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 776 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1020 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:477:42: required from here 477 | f_w::class_f_t class_f_t(f_w::numeric("double", scope())); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:18: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = double]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 202 | return copy_slice(self, slices_simple); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 228 | return boost::python::object(getitem_nd_slice(a.const_ref(), slices)); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1020 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:477:42: required from here 477 | f_w::class_f_t class_f_t(f_w::numeric("double", scope())); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 89 | for (int i=0;i >&, small, const const_ref >&) [with T = double]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1020 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:477:42: required from here 477 | f_w::class_f_t class_f_t(f_w::numeric("double", scope())); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 114 | for (int i=0;i >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = double]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = double]’ 119 | detail::copy_to_slice_detail(self, slices, other); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1020 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:477:42: required from here 477 | f_w::class_f_t class_f_t(f_w::numeric("double", scope())); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 70 | if (idx_a[j] < slices[j].stop) break; g++ -o scitbx/array_family/boost_python/flex_double_matrix.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_double_matrix.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_double_matrix.cpp:4: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/matrix/norms.h: In instantiation of ‘FloatType scitbx::matrix::norm_1(const scitbx::af::const_ref >&) [with FloatType = double]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_double_matrix.cpp:119:74: required from here 119 | double (*matrix_norm_1)(const_ref const &) = matrix::norm_1; | ^~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/matrix/norms.h:16:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 16 | for (int i=0; i >&) [with FloatType = double]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_double_matrix.cpp:177:11: required from here 145 | class_f_t | ~~~~~~~~~ 146 | .def("is_square_matrix", is_square_matrix) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 147 | .def("matrix_diagonal", | ~~~~~~~~~~~~~~~~~~~~~~~ 148 | (shared(*)( | ~~~~~~~~~~~~~~~~~~~ 149 | const_ref > const&)) matrix_diagonal) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 150 | .def("matrix_upper_bidiagonal", matrix_upper_bidiagonal) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 151 | .def("matrix_lower_bidiagonal", matrix_lower_bidiagonal) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 152 | .def("matrix_diagonal_set_in_place", | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 153 | (void(*)( | ~~~~~~~~~ 154 | ref > const&, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 155 | double const&)) matrix_diagonal_set_in_place, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 156 | arg("value")) | ~~~~~~~~~~~~~ 157 | .def("matrix_diagonal_set_in_place", | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 158 | (void(*)( | ~~~~~~~~~ 159 | ref > const&, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 160 | const_ref const&)) matrix_diagonal_set_in_place, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 161 | arg("diagonal")) | ~~~~~~~~~~~~~~~~ 162 | .def("matrix_diagonal_add_in_place", | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 163 | (void(*)( | ~~~~~~~~~ 164 | ref > const&, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 165 | double const&)) matrix_diagonal_add_in_place, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 166 | arg("value")) | ~~~~~~~~~~~~~ 167 | .def("matrix_diagonal_sum", | ~~~~~~~~~~~~~~~~~~~~~~~~~~~ 168 | (double(*)( | ~~~~~~~~~~~ 169 | const_ref > const&)) matrix_diagonal_sum) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 170 | .def("matrix_trace", | ~~~~~~~~~~~~~~~~~~~~ 171 | (double(*)( | ~~~~~~~~~~~ 172 | const_ref > const&)) matrix_diagonal_sum) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 173 | .def("matrix_diagonal_product", | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 174 | (double(*)( | ~~~~~~~~~~~ 175 | const_ref > const&)) matrix_diagonal_product) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 176 | .def("matrix_norm_1", matrix_norm_1) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 177 | .def("matrix_norm_inf", matrix::norm_inf) | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/matrix/norms.h:32:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 32 | for (int i=0; i >&) [with FloatType = double]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_double_matrix.cpp:178:11: required from here 145 | class_f_t | ~~~~~~~~~ 146 | .def("is_square_matrix", is_square_matrix) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 147 | .def("matrix_diagonal", | ~~~~~~~~~~~~~~~~~~~~~~~ 148 | (shared(*)( | ~~~~~~~~~~~~~~~~~~~ 149 | const_ref > const&)) matrix_diagonal) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 150 | .def("matrix_upper_bidiagonal", matrix_upper_bidiagonal) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 151 | .def("matrix_lower_bidiagonal", matrix_lower_bidiagonal) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 152 | .def("matrix_diagonal_set_in_place", | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 153 | (void(*)( | ~~~~~~~~~ 154 | ref > const&, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 155 | double const&)) matrix_diagonal_set_in_place, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 156 | arg("value")) | ~~~~~~~~~~~~~ 157 | .def("matrix_diagonal_set_in_place", | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 158 | (void(*)( | ~~~~~~~~~ 159 | ref > const&, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 160 | const_ref const&)) matrix_diagonal_set_in_place, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 161 | arg("diagonal")) | ~~~~~~~~~~~~~~~~ 162 | .def("matrix_diagonal_add_in_place", | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 163 | (void(*)( | ~~~~~~~~~ 164 | ref > const&, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 165 | double const&)) matrix_diagonal_add_in_place, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 166 | arg("value")) | ~~~~~~~~~~~~~ 167 | .def("matrix_diagonal_sum", | ~~~~~~~~~~~~~~~~~~~~~~~~~~~ 168 | (double(*)( | ~~~~~~~~~~~ 169 | const_ref > const&)) matrix_diagonal_sum) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 170 | .def("matrix_trace", | ~~~~~~~~~~~~~~~~~~~~ 171 | (double(*)( | ~~~~~~~~~~~ 172 | const_ref > const&)) matrix_diagonal_sum) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 173 | .def("matrix_diagonal_product", | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 174 | (double(*)( | ~~~~~~~~~~~ 175 | const_ref > const&)) matrix_diagonal_product) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 176 | .def("matrix_norm_1", matrix_norm_1) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 177 | .def("matrix_norm_inf", matrix::norm_inf) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 178 | .def("matrix_norm_frobenius", matrix::norm_frobenius) | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/matrix/norms.h:46:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 46 | for (int k=0; k < a_ij.size(); ++k) norm_accu(a_ij[k]); | ~~^~~~~~~~~~~~~ g++ -o scitbx/array_family/boost_python/flex_complex_double.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_complex_double.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/accessors/flex_grid.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/flex_types.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_complex_double.cpp:1: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h: In member function ‘void scitbx::af::boost_python::detail::getstate_manager::advance(char*)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:43: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:9: note: in expansion of macro ‘SCITBX_ASSERT’ 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); | ^~~~~~~~~~~~~ In file included from /usr/include/boost/assert.hpp:64, from /usr/include/boost/optional/optional.hpp:25, from /usr/include/boost/optional.hpp:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref_reductions.h:8, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small_plain.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/accessors/flex_grid.h:5: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 769 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 770 | shared_plain, | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 771 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 772 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_complex_double.cpp:117:24: required from here 117 | f_w::numeric_common("complex_double", local_scope) | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 773 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 774 | shared, | ~~~~~~~~~~~~~~~~~~~~ 775 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 776 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_complex_double.cpp:117:24: required from here 117 | f_w::numeric_common("complex_double", local_scope) | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:18: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = std::complex]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 202 | return copy_slice(self, slices_simple); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 228 | return boost::python::object(getitem_nd_slice(a.const_ref(), slices)); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_complex_double.cpp:117:24: required from here 117 | f_w::numeric_common("complex_double", local_scope) | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 89 | for (int i=0;i >&, small, const const_ref >&) [with T = std::complex]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_complex_double.cpp:117:24: required from here 117 | f_w::numeric_common("complex_double", local_scope) | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 114 | for (int i=0;i >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = std::complex]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = std::complex]’ 119 | detail::copy_to_slice_detail(self, slices, other); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_complex_double.cpp:117:24: required from here 117 | f_w::numeric_common("complex_double", local_scope) | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 70 | if (idx_a[j] < slices[j].stop) break; g++ -o scitbx/array_family/boost_python/flex_std_string.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_std_string.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/array_family/boost_python/flex_random.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_random.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_std_string.cpp:3: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/misc/split_lines.h: In function ‘scitbx::af::shared > scitbx::misc::split_lines(const char*, std::size_t, bool, bool)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/misc/split_lines.h:24:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 24 | while (i < size) { | ~~^~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/misc/split_lines.h:25:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 25 | while (i < size && data[i] != '\n' && data[i] != '\r') i++; | ~~^~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/misc/split_lines.h:27:15: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 27 | if (i < size) { | ~~^~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/misc/split_lines.h:28:38: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 28 | if (data[i] == '\r' && i+1 < size && data[i+1] == '\n') { | ~~~~^~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/misc/split_lines.h:46:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 46 | if (j < size) { | ~~^~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_std_string.cpp:1: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::first_index_a_s(const f_t&, e_t) [with ElementType = std::__cxx11::basic_string; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >; e_t = std::__cxx11::basic_string]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:885:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::ordered(const std::string&, const boost::python::api::object&) [with ElementType = std::__cxx11::basic_string; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 885 | def("first_index", first_index_a_s); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_std_string.cpp:132:16: required from here 132 | fw::ordered("std_string", scope()) | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:616:41: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to<__cxx11::basic_string >; _Tp = __cxx11::basic_string]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] 616 | return first_index(a, std::bind2nd(std::equal_to(), x)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/15/bits/stl_function.h:1480, from /usr/include/c++/15/string:51, from /usr/include/boost/core/demangle.hpp:14, from /usr/include/boost/core/typeinfo.hpp:135, from /usr/include/boost/function/function_base.hpp:16, from /usr/include/boost/function/function_template.hpp:14, from /usr/include/boost/function/function0.hpp:10, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/to_python_value.hpp:14, from /usr/include/boost/python/default_call_policies.hpp:10, from /usr/include/boost/python/make_function.hpp:10, from /usr/include/boost/python/def.hpp:11, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:6: /usr/include/c++/15/backward/binders.h:172:5: note: declared here 172 | bind2nd(const _Operation& __fn, const _Tp& __x) | ^~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::last_index_a_s(const f_t&, e_t) [with ElementType = std::__cxx11::basic_string; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >; e_t = std::__cxx11::basic_string]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:886:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::ordered(const std::string&, const boost::python::api::object&) [with ElementType = std::__cxx11::basic_string; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 886 | def("last_index", last_index_a_s); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_std_string.cpp:132:16: required from here 132 | fw::ordered("std_string", scope()) | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:621:40: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to<__cxx11::basic_string >; _Tp = __cxx11::basic_string]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] 621 | return last_index(a, std::bind2nd(std::equal_to(), x)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/15/backward/binders.h:172:5: note: declared here 172 | bind2nd(const _Operation& __fn, const _Tp& __x) | ^~~~~~~ In file included from /usr/include/boost/assert.hpp:64, from /usr/include/boost/optional/optional.hpp:25, from /usr/include/boost/optional.hpp:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref_reductions.h:8, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small_plain.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/accessors/flex_grid.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/flex_types.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:15: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = std::__cxx11::basic_string; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 769 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 770 | shared_plain, | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 771 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 772 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:888:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::ordered(const std::string&, const boost::python::api::object&) [with ElementType = std::__cxx11::basic_string; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 888 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_std_string.cpp:132:16: required from here 132 | fw::ordered("std_string", scope()) | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = std::__cxx11::basic_string; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 773 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 774 | shared, | ~~~~~~~~~~~~~~~~~~~~ 775 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 776 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:888:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::ordered(const std::string&, const boost::python::api::object&) [with ElementType = std::__cxx11::basic_string; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 888 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_std_string.cpp:132:16: required from here 132 | fw::ordered("std_string", scope()) | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:18: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = std::__cxx11::basic_string]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = std::__cxx11::basic_string; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 202 | return copy_slice(self, slices_simple); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = std::__cxx11::basic_string; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 228 | return boost::python::object(getitem_nd_slice(a.const_ref(), slices)); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = std::__cxx11::basic_string; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:888:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::ordered(const std::string&, const boost::python::api::object&) [with ElementType = std::__cxx11::basic_string; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 888 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_std_string.cpp:132:16: required from here 132 | fw::ordered("std_string", scope()) | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 89 | for (int i=0;i >&, small, const const_ref >&) [with T = std::__cxx11::basic_string]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = std::__cxx11::basic_string; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = std::__cxx11::basic_string; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = std::__cxx11::basic_string; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:888:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::ordered(const std::string&, const boost::python::api::object&) [with ElementType = std::__cxx11::basic_string; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 888 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_std_string.cpp:132:16: required from here 132 | fw::ordered("std_string", scope()) | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 114 | for (int i=0;i >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = std::__cxx11::basic_string]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = std::__cxx11::basic_string]’ 119 | detail::copy_to_slice_detail(self, slices, other); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = std::__cxx11::basic_string; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = std::__cxx11::basic_string; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = std::__cxx11::basic_string; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:888:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::ordered(const std::string&, const boost::python::api::object&) [with ElementType = std::__cxx11::basic_string; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 888 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_std_string.cpp:132:16: required from here 132 | fw::ordered("std_string", scope()) | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 70 | if (idx_a[j] < slices[j].stop) break; g++ -o scitbx/array_family/boost_python/flex_sort.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_sort.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/array_family/boost_python/flex_histogram.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_histogram.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/array_family/boost_python/flex_weighted_histogram.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_weighted_histogram.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/array_family/boost_python/flex_mean_and_variance.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_mean_and_variance.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/array_family/boost_python/flex_median.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_median.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/array_family/boost_python/flex_linear_interpolation.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_linear_interpolation.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/array_family/boost_python/flex_vec3_double.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_vec3_double.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_median.cpp:2: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/basic_statistics.h: In instantiation of ‘scitbx::math::median_statistics scitbx::math::median_functor::dispersion(const scitbx::af::ref&) [with FloatType = double]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_median.cpp:31:26: required from ‘static scitbx::math::median_statistics scitbx::af::boost_python::median_functor_wrapper::dispersion(wt&, const scitbx::af::const_ref&) [with FloatType = double; wt = scitbx::math::median_functor]’ 31 | return O.dispersion(af::make_ref(buffer)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_median.cpp:40:13: required from ‘static void scitbx::af::boost_python::median_functor_wrapper::wrap(const char*) [with FloatType = double]’ 36 | class_(name, no_init) | ~~~~~~~~~~~~~~~~~~~~~~~~~ 37 | .def(init<>()) | ~~~~~~~~~~~~~~ 38 | .def(init(arg("seed"))) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 39 | .def("__call__", call, arg("data")) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 40 | .def("dispersion", dispersion, arg("data")) | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_median.cpp:63:41: required from here 63 | median_functor_wrapper::wrap("median_functor"); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/basic_statistics.h:210:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 210 | for (int i=0; i < data.size(); ++i) { | ~~^~~~~~~~~~~~~ g++ -o scitbx/array_family/boost_python/flex_vec2_double.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_vec2_double.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/array_family/boost_python/flex_vec3_int.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_vec3_int.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/array_family/boost_python/flex_sym_mat3_double.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_sym_mat3_double.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/accessors/flex_grid.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/flex_types.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_vec3_double.cpp:3: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h: In member function ‘void scitbx::af::boost_python::detail::getstate_manager::advance(char*)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:43: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:9: note: in expansion of macro ‘SCITBX_ASSERT’ 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); | ^~~~~~~~~~~~~ In file included from /usr/include/boost/assert.hpp:64, from /usr/include/boost/optional/optional.hpp:25, from /usr/include/boost/optional.hpp:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref_reductions.h:8, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small_plain.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/accessors/flex_grid.h:5: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 769 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 770 | shared_plain, | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 771 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 772 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_vec3_double.cpp:567:15: required from here 567 | f_w::plain("vec3_double") | ~~~~~~~~~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 773 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 774 | shared, | ~~~~~~~~~~~~~~~~~~~~ 775 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 776 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_vec3_double.cpp:567:15: required from here 567 | f_w::plain("vec3_double") | ~~~~~~~~~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:18: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = scitbx::vec3]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 202 | return copy_slice(self, slices_simple); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 228 | return boost::python::object(getitem_nd_slice(a.const_ref(), slices)); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_vec3_double.cpp:567:15: required from here 567 | f_w::plain("vec3_double") | ~~~~~~~~~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 89 | for (int i=0;i >&, small, const const_ref >&) [with T = scitbx::vec3]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_vec3_double.cpp:567:15: required from here 567 | f_w::plain("vec3_double") | ~~~~~~~~~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 114 | for (int i=0;i >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = scitbx::vec3]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = scitbx::vec3]’ 119 | detail::copy_to_slice_detail(self, slices, other); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_vec3_double.cpp:567:15: required from here 567 | f_w::plain("vec3_double") | ~~~~~~~~~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 70 | if (idx_a[j] < slices[j].stop) break; In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/accessors/flex_grid.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/flex_types.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_vec2_double.cpp:3: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h: In member function ‘void scitbx::af::boost_python::detail::getstate_manager::advance(char*)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:43: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:9: note: in expansion of macro ‘SCITBX_ASSERT’ 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_vec2_double.cpp: In function ‘scitbx::af::flex >::type* scitbx::af::{anonymous}::array_indices_as_double_from_array_focus_dimensions(const scitbx::vec2&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_vec2_double.cpp:128:26: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] 128 | for(std::size_t i=0;i::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec2; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 769 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 770 | shared_plain, | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 771 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 772 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_vec2_double.cpp:440:15: required from here 440 | f_w::plain("vec2_double") | ~~~~~~~~~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec2; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 773 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 774 | shared, | ~~~~~~~~~~~~~~~~~~~~ 775 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 776 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_vec2_double.cpp:440:15: required from here 440 | f_w::plain("vec2_double") | ~~~~~~~~~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:18: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = scitbx::vec2]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = scitbx::vec2; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 202 | return copy_slice(self, slices_simple); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = scitbx::vec2; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 228 | return boost::python::object(getitem_nd_slice(a.const_ref(), slices)); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec2; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_vec2_double.cpp:440:15: required from here 440 | f_w::plain("vec2_double") | ~~~~~~~~~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 89 | for (int i=0;i >&, small, const const_ref >&) [with T = scitbx::vec2]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = scitbx::vec2; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = scitbx::vec2; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec2; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_vec2_double.cpp:440:15: required from here 440 | f_w::plain("vec2_double") | ~~~~~~~~~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 114 | for (int i=0;i >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = scitbx::vec2]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = scitbx::vec2]’ 119 | detail::copy_to_slice_detail(self, slices, other); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = scitbx::vec2; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = scitbx::vec2; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec2; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_vec2_double.cpp:440:15: required from here 440 | f_w::plain("vec2_double") | ~~~~~~~~~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 70 | if (idx_a[j] < slices[j].stop) break; In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/accessors/flex_grid.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/flex_types.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_sym_mat3_double.cpp:3: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h: In member function ‘void scitbx::af::boost_python::detail::getstate_manager::advance(char*)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:43: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:9: note: in expansion of macro ‘SCITBX_ASSERT’ 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); | ^~~~~~~~~~~~~ In file included from /usr/include/boost/assert.hpp:64, from /usr/include/boost/optional/optional.hpp:25, from /usr/include/boost/optional.hpp:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref_reductions.h:8, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small_plain.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/accessors/flex_grid.h:5: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::sym_mat3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 769 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 770 | shared_plain, | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 771 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 772 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_sym_mat3_double.cpp:124:15: required from here 124 | f_w::plain("sym_mat3_double") | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::sym_mat3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 773 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 774 | shared, | ~~~~~~~~~~~~~~~~~~~~ 775 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 776 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_sym_mat3_double.cpp:124:15: required from here 124 | f_w::plain("sym_mat3_double") | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:18: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = scitbx::sym_mat3]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = scitbx::sym_mat3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 202 | return copy_slice(self, slices_simple); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = scitbx::sym_mat3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 228 | return boost::python::object(getitem_nd_slice(a.const_ref(), slices)); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::sym_mat3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_sym_mat3_double.cpp:124:15: required from here 124 | f_w::plain("sym_mat3_double") | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 89 | for (int i=0;i >&, small, const const_ref >&) [with T = scitbx::sym_mat3]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = scitbx::sym_mat3; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = scitbx::sym_mat3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::sym_mat3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_sym_mat3_double.cpp:124:15: required from here 124 | f_w::plain("sym_mat3_double") | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 114 | for (int i=0;i >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = scitbx::sym_mat3]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = scitbx::sym_mat3]’ 119 | detail::copy_to_slice_detail(self, slices, other); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = scitbx::sym_mat3; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = scitbx::sym_mat3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::sym_mat3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_sym_mat3_double.cpp:124:15: required from here 124 | f_w::plain("sym_mat3_double") | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 70 | if (idx_a[j] < slices[j].stop) break; In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/accessors/flex_grid.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/flex_types.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_vec3_int.cpp:3: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h: In member function ‘void scitbx::af::boost_python::detail::getstate_manager::advance(char*)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:43: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:9: note: in expansion of macro ‘SCITBX_ASSERT’ 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); | ^~~~~~~~~~~~~ In file included from /usr/include/boost/assert.hpp:64, from /usr/include/boost/optional/optional.hpp:25, from /usr/include/boost/optional.hpp:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref_reductions.h:8, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small_plain.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/accessors/flex_grid.h:5: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 769 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 770 | shared_plain, | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 771 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 772 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_vec3_int.cpp:117:15: required from here 117 | f_w::plain("vec3_int") | ~~~~~~~~~~^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 773 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 774 | shared, | ~~~~~~~~~~~~~~~~~~~~ 775 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 776 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_vec3_int.cpp:117:15: required from here 117 | f_w::plain("vec3_int") | ~~~~~~~~~~^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:18: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = scitbx::vec3]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 202 | return copy_slice(self, slices_simple); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 228 | return boost::python::object(getitem_nd_slice(a.const_ref(), slices)); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_vec3_int.cpp:117:15: required from here 117 | f_w::plain("vec3_int") | ~~~~~~~~~~^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 89 | for (int i=0;i >&, small, const const_ref >&) [with T = scitbx::vec3]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_vec3_int.cpp:117:15: required from here 117 | f_w::plain("vec3_int") | ~~~~~~~~~~^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 114 | for (int i=0;i >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = scitbx::vec3]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = scitbx::vec3]’ 119 | detail::copy_to_slice_detail(self, slices, other); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_vec3_int.cpp:117:15: required from here 117 | f_w::plain("vec3_int") | ~~~~~~~~~~^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 70 | if (idx_a[j] < slices[j].stop) break; In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/flex_types.h:7: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa_plain.h: In member function ‘void scitbx::af::versa_plain::resize(const AccessorType&) [with ElementType = scitbx::vec3; AccessorType = scitbx::af::flex_grid<>]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa_plain.h:168:27: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] 168 | base_class::resize(m_accessor.size_1d(), ElementType()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:307, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa_plain.h:5: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/detail/push_back_etc.h:165:12: note: by argument 3 of type ‘const scitbx::vec3&’ to ‘void scitbx::af::shared_plain::resize(const size_type&, const ElementType&) [with ElementType = scitbx::vec3]’ declared here 165 | void resize(size_type const& new_size, ElementType const& x) { | ^~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa_plain.h:168:50: note: ‘’ declared here 168 | base_class::resize(m_accessor.size_1d(), ElementType()); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h: In constructor ‘scitbx::af::shared_plain::shared_plain(const size_type&) [with ElementType = scitbx::vec3]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:132:34: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/15/memory:71, from /usr/include/boost/function/function_base.hpp:23, from /usr/include/boost/function/function_template.hpp:14, from /usr/include/boost/function/function0.hpp:10, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/to_python_value.hpp:14, from /usr/include/boost/python/default_call_policies.hpp:10, from /usr/include/boost/python/make_function.hpp:10, from /usr/include/boost/python/def.hpp:11, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:6: /usr/include/c++/15/bits/stl_uninitialized.h:526:5: note: by argument 3 of type ‘const scitbx::vec3&’ to ‘_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = scitbx::vec3*; _Size = long unsigned int; _Tp = scitbx::vec3]’ declared here 526 | uninitialized_fill_n(_ForwardIterator __first, _Size __n, const _Tp& __x) | ^~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:132:48: note: ‘’ declared here 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); | ^~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/flex_types.h:7: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa_plain.h: In member function ‘void scitbx::af::versa_plain::resize(const AccessorType&) [with ElementType = scitbx::sym_mat3; AccessorType = scitbx::af::flex_grid<>]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa_plain.h:168:27: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] 168 | base_class::resize(m_accessor.size_1d(), ElementType()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:307, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa_plain.h:5: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/detail/push_back_etc.h:165:12: note: by argument 3 of type ‘const scitbx::sym_mat3&’ to ‘void scitbx::af::shared_plain::resize(const size_type&, const ElementType&) [with ElementType = scitbx::sym_mat3]’ declared here 165 | void resize(size_type const& new_size, ElementType const& x) { | ^~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa_plain.h:168:50: note: ‘’ declared here 168 | base_class::resize(m_accessor.size_1d(), ElementType()); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h: In constructor ‘scitbx::af::shared_plain::shared_plain(const size_type&) [with ElementType = scitbx::sym_mat3]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:132:34: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/15/memory:71, from /usr/include/boost/function/function_base.hpp:23, from /usr/include/boost/function/function_template.hpp:14, from /usr/include/boost/function/function0.hpp:10, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/to_python_value.hpp:14, from /usr/include/boost/python/default_call_policies.hpp:10, from /usr/include/boost/python/make_function.hpp:10, from /usr/include/boost/python/def.hpp:11, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:6: /usr/include/c++/15/bits/stl_uninitialized.h:526:5: note: by argument 3 of type ‘const scitbx::sym_mat3&’ to ‘_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = scitbx::sym_mat3*; _Size = long unsigned int; _Tp = scitbx::sym_mat3]’ declared here 526 | uninitialized_fill_n(_ForwardIterator __first, _Size __n, const _Tp& __x) | ^~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:132:48: note: ‘’ declared here 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); | ^~~~~~~~~~~~~ g++ -o scitbx/array_family/boost_python/flex_mat3_double.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_mat3_double.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/flex_types.h:7: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa_plain.h: In member function ‘void scitbx::af::versa_plain::resize(const AccessorType&) [with ElementType = scitbx::vec3; AccessorType = scitbx::af::flex_grid<>]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa_plain.h:168:27: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] 168 | base_class::resize(m_accessor.size_1d(), ElementType()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:307, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa_plain.h:5: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/detail/push_back_etc.h:165:12: note: by argument 3 of type ‘const scitbx::vec3&’ to ‘void scitbx::af::shared_plain::resize(const size_type&, const ElementType&) [with ElementType = scitbx::vec3]’ declared here 165 | void resize(size_type const& new_size, ElementType const& x) { | ^~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa_plain.h:168:50: note: ‘’ declared here 168 | base_class::resize(m_accessor.size_1d(), ElementType()); | ^~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/flex_types.h:7: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa_plain.h: In member function ‘void scitbx::af::versa_plain::resize(const AccessorType&) [with ElementType = scitbx::vec2; AccessorType = scitbx::af::flex_grid<>]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa_plain.h:168:27: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] 168 | base_class::resize(m_accessor.size_1d(), ElementType()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:307, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa_plain.h:5: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/detail/push_back_etc.h:165:12: note: by argument 3 of type ‘const scitbx::vec2&’ to ‘void scitbx::af::shared_plain::resize(const size_type&, const ElementType&) [with ElementType = scitbx::vec2]’ declared here 165 | void resize(size_type const& new_size, ElementType const& x) { | ^~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa_plain.h:168:50: note: ‘’ declared here 168 | base_class::resize(m_accessor.size_1d(), ElementType()); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h: In constructor ‘scitbx::af::shared_plain::shared_plain(const size_type&) [with ElementType = scitbx::vec3]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:132:34: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/15/memory:71, from /usr/include/boost/function/function_base.hpp:23, from /usr/include/boost/function/function_template.hpp:14, from /usr/include/boost/function/function0.hpp:10, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/to_python_value.hpp:14, from /usr/include/boost/python/default_call_policies.hpp:10, from /usr/include/boost/python/make_function.hpp:10, from /usr/include/boost/python/def.hpp:11, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:6: /usr/include/c++/15/bits/stl_uninitialized.h:526:5: note: by argument 3 of type ‘const scitbx::vec3&’ to ‘_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = scitbx::vec3*; _Size = long unsigned int; _Tp = scitbx::vec3]’ declared here 526 | uninitialized_fill_n(_ForwardIterator __first, _Size __n, const _Tp& __x) | ^~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:132:48: note: ‘’ declared here 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h: In constructor ‘scitbx::af::shared_plain::shared_plain(const size_type&) [with ElementType = scitbx::vec2]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:132:34: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/15/memory:71, from /usr/include/boost/function/function_base.hpp:23, from /usr/include/boost/function/function_template.hpp:14, from /usr/include/boost/function/function0.hpp:10, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/to_python_value.hpp:14, from /usr/include/boost/python/default_call_policies.hpp:10, from /usr/include/boost/python/make_function.hpp:10, from /usr/include/boost/python/def.hpp:11, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:6: /usr/include/c++/15/bits/stl_uninitialized.h:526:5: note: by argument 3 of type ‘const scitbx::vec2&’ to ‘_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = scitbx::vec2*; _Size = long unsigned int; _Tp = scitbx::vec2]’ declared here 526 | uninitialized_fill_n(_ForwardIterator __first, _Size __n, const _Tp& __x) | ^~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:132:48: note: ‘’ declared here 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); | ^~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/accessors/flex_grid.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/flex_types.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_mat3_double.cpp:3: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h: In member function ‘void scitbx::af::boost_python::detail::getstate_manager::advance(char*)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:43: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:9: note: in expansion of macro ‘SCITBX_ASSERT’ 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); | ^~~~~~~~~~~~~ In file included from /usr/include/boost/assert.hpp:64, from /usr/include/boost/optional/optional.hpp:25, from /usr/include/boost/optional.hpp:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref_reductions.h:8, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small_plain.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/accessors/flex_grid.h:5: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::mat3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 769 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 770 | shared_plain, | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 771 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 772 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_mat3_double.cpp:180:15: required from here 180 | f_w::plain("mat3_double") | ~~~~~~~~~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::mat3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 773 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 774 | shared, | ~~~~~~~~~~~~~~~~~~~~ 775 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 776 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_mat3_double.cpp:180:15: required from here 180 | f_w::plain("mat3_double") | ~~~~~~~~~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:18: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = scitbx::mat3]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = scitbx::mat3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 202 | return copy_slice(self, slices_simple); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = scitbx::mat3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 228 | return boost::python::object(getitem_nd_slice(a.const_ref(), slices)); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::mat3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_mat3_double.cpp:180:15: required from here 180 | f_w::plain("mat3_double") | ~~~~~~~~~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 89 | for (int i=0;i >&, small, const const_ref >&) [with T = scitbx::mat3]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = scitbx::mat3; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = scitbx::mat3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::mat3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_mat3_double.cpp:180:15: required from here 180 | f_w::plain("mat3_double") | ~~~~~~~~~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 114 | for (int i=0;i >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = scitbx::mat3]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = scitbx::mat3]’ 119 | detail::copy_to_slice_detail(self, slices, other); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = scitbx::mat3; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = scitbx::mat3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::mat3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_mat3_double.cpp:180:15: required from here 180 | f_w::plain("mat3_double") | ~~~~~~~~~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 70 | if (idx_a[j] < slices[j].stop) break; g++ -o scitbx/array_family/boost_python/flex_tiny_size_t_2.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_tiny_size_t_2.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/array_family/boost_python/loops.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/loops.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /usr/include/boost/assert.hpp:64, from /usr/include/boost/optional/optional.hpp:25, from /usr/include/boost/optional.hpp:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref_reductions.h:8, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small_plain.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/accessors/flex_grid.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/flex_types.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_tiny_size_t_2.cpp:3: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 769 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 770 | shared_plain, | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 771 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 772 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_tiny_size_t_2.cpp:32:47: required from here 32 | flex_wrapper >::plain("tiny_size_t_2") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 773 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 774 | shared, | ~~~~~~~~~~~~~~~~~~~~ 775 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 776 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_tiny_size_t_2.cpp:32:47: required from here 32 | flex_wrapper >::plain("tiny_size_t_2") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:18: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = tiny]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 202 | return copy_slice(self, slices_simple); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 228 | return boost::python::object(getitem_nd_slice(a.const_ref(), slices)); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_tiny_size_t_2.cpp:32:47: required from here 32 | flex_wrapper >::plain("tiny_size_t_2") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 89 | for (int i=0;i >&, small, const const_ref >&) [with T = tiny]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_tiny_size_t_2.cpp:32:47: required from here 32 | flex_wrapper >::plain("tiny_size_t_2") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 114 | for (int i=0;i >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = scitbx::af::tiny]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = tiny]’ 119 | detail::copy_to_slice_detail(self, slices, other); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_tiny_size_t_2.cpp:32:47: required from here 32 | flex_wrapper >::plain("tiny_size_t_2") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 70 | if (idx_a[j] < slices[j].stop) break; In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/flex_types.h:7: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa_plain.h: In member function ‘void scitbx::af::versa_plain::resize(const AccessorType&) [with ElementType = scitbx::mat3; AccessorType = scitbx::af::flex_grid<>]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa_plain.h:168:27: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] 168 | base_class::resize(m_accessor.size_1d(), ElementType()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:307, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa_plain.h:5: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/detail/push_back_etc.h:165:12: note: by argument 3 of type ‘const scitbx::mat3&’ to ‘void scitbx::af::shared_plain::resize(const size_type&, const ElementType&) [with ElementType = scitbx::mat3]’ declared here 165 | void resize(size_type const& new_size, ElementType const& x) { | ^~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa_plain.h:168:50: note: ‘’ declared here 168 | base_class::resize(m_accessor.size_1d(), ElementType()); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h: In constructor ‘scitbx::af::shared_plain::shared_plain(const size_type&) [with ElementType = scitbx::mat3]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:132:34: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/15/memory:71, from /usr/include/boost/function/function_base.hpp:23, from /usr/include/boost/function/function_template.hpp:14, from /usr/include/boost/function/function0.hpp:10, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/to_python_value.hpp:14, from /usr/include/boost/python/default_call_policies.hpp:10, from /usr/include/boost/python/make_function.hpp:10, from /usr/include/boost/python/def.hpp:11, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:6: /usr/include/c++/15/bits/stl_uninitialized.h:526:5: note: by argument 3 of type ‘const scitbx::mat3&’ to ‘_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = scitbx::mat3*; _Size = long unsigned int; _Tp = scitbx::mat3]’ declared here 526 | uninitialized_fill_n(_ForwardIterator __first, _Size __n, const _Tp& __x) | ^~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:132:48: note: ‘’ declared here 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); | ^~~~~~~~~~~~~ g++ -o scitbx/array_family/boost_python/show_sizes.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/show_sizes.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/array_family/boost_python/numpy_bridge.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -DSCITBX_HAVE_NUMPY_INCLUDE -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/array_family/boost_python/shared_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/cubicle_neighbors_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/cubicle_neighbors_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/flex_types.h:7: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa_plain.h: In member function ‘void scitbx::af::versa_plain::resize(const AccessorType&) [with ElementType = scitbx::af::tiny; AccessorType = scitbx::af::flex_grid<>]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa_plain.h:168:27: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] 168 | base_class::resize(m_accessor.size_1d(), ElementType()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:307, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa_plain.h:5: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/detail/push_back_etc.h:165:12: note: by argument 3 of type ‘const scitbx::af::tiny&’ to ‘void scitbx::af::shared_plain::resize(const size_type&, const ElementType&) [with ElementType = scitbx::af::tiny]’ declared here 165 | void resize(size_type const& new_size, ElementType const& x) { | ^~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa_plain.h:168:50: note: ‘’ declared here 168 | base_class::resize(m_accessor.size_1d(), ElementType()); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h: In constructor ‘scitbx::af::shared_plain::shared_plain(const size_type&) [with ElementType = scitbx::af::tiny]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:132:34: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/15/memory:71, from /usr/include/boost/function/function_base.hpp:23, from /usr/include/boost/function/function_template.hpp:14, from /usr/include/boost/function/function0.hpp:10, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/to_python_value.hpp:14, from /usr/include/boost/python/default_call_policies.hpp:10, from /usr/include/boost/python/make_function.hpp:10, from /usr/include/boost/python/def.hpp:11, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:6: /usr/include/c++/15/bits/stl_uninitialized.h:526:5: note: by argument 3 of type ‘const scitbx::af::tiny&’ to ‘_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = scitbx::af::tiny*; _Size = long unsigned int; _Tp = scitbx::af::tiny]’ declared here 526 | uninitialized_fill_n(_ForwardIterator __first, _Size __n, const _Tp& __x) | ^~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:132:48: note: ‘’ declared here 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); | ^~~~~~~~~~~~~ g++ -o scitbx/fftpack/boost_python/fftpack_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/fftpack/boost_python/fftpack_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /usr/include/boost/assert.hpp:64, from /usr/include/boost/optional/optional.hpp:25, from /usr/include/boost/optional.hpp:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref_reductions.h:8, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:31, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:12, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_ext.cpp:3: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = std::vector; GetitemReturnValuePolicy = boost::python::return_internal_reference<>; std::string = std::__cxx11::basic_string]’ 130 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 131 | w_t, | ~~~~ 132 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_ext.cpp:40:53: required from here 40 | shared_wrapper, rir>::wrap("stl_vector_unsigned"); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = std::vector; GetitemReturnValuePolicy = boost::python::return_internal_reference<>; std::string = std::__cxx11::basic_string]’ 130 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 131 | w_t, | ~~~~ 132 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_ext.cpp:41:51: required from here 41 | shared_wrapper, rir>::wrap("stl_vector_double"); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = std::set; GetitemReturnValuePolicy = boost::python::return_internal_reference<>; std::string = std::__cxx11::basic_string]’ 130 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 131 | w_t, | ~~~~ 132 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_ext.cpp:42:50: required from here 42 | shared_wrapper, rir>::wrap("stl_set_unsigned") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = scitbx::mat3; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ 130 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 131 | w_t, | ~~~~ 132 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_ext.cpp:48:37: required from here 48 | shared_wrapper >::wrap("mat3_int"); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ 130 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 131 | w_t, | ~~~~ 132 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_ext.cpp:49:40: required from here 49 | shared_wrapper >::wrap("tiny_int_3"); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ 130 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 131 | w_t, | ~~~~ 132 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_ext.cpp:50:40: required from here 50 | shared_wrapper >::wrap("tiny_int_4"); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ 130 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 131 | w_t, | ~~~~ 132 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_ext.cpp:51:40: required from here 51 | shared_wrapper >::wrap("tiny_int_2"); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp: In instantiation of ‘boost::python::api::object scitbx::af::boost_python::ref_flex_as_numpy_array(const scitbx::af::ref >&, bool, int) [with ElementType = bool]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:202:3: required from here 191 | return ref_flex_as_numpy_array(O, optional, type_num); \ | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:86:23: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 86 | for(unsigned i=0;i > scitbx::af::boost_python::versa_flex_from_numpy_array(const boost::python::numpy::ndarray&) [with ElementType = bool]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:202:3: required from here 199 | versa_flex_from_numpy_array(arr_obj)); \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:132:24: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘long int’} and ‘scitbx::af::small_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 132 | SCITBX_ASSERT(ndim <= all.capacity()); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:132:5: note: in expansion of macro ‘SCITBX_ASSERT’ 132 | SCITBX_ASSERT(ndim <= all.capacity()); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:138:34: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘npy_intp’ {aka ‘long int’} [-Wsign-compare] 138 | SCITBX_ASSERT(grid.size_1d() == PyArray_Size(obj_ptr)); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:138:5: note: in expansion of macro ‘SCITBX_ASSERT’ 138 | SCITBX_ASSERT(grid.size_1d() == PyArray_Size(obj_ptr)); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp: In instantiation of ‘boost::python::api::object scitbx::af::boost_python::ref_flex_as_numpy_array(const scitbx::af::ref >&, bool, int) [with ElementType = int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:203:3: required from here 191 | return ref_flex_as_numpy_array(O, optional, type_num); \ | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:86:23: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 86 | for(unsigned i=0;i > scitbx::af::boost_python::versa_flex_from_numpy_array(const boost::python::numpy::ndarray&) [with ElementType = int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:203:3: required from here 199 | versa_flex_from_numpy_array(arr_obj)); \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:132:24: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘long int’} and ‘scitbx::af::small_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 132 | SCITBX_ASSERT(ndim <= all.capacity()); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:132:5: note: in expansion of macro ‘SCITBX_ASSERT’ 132 | SCITBX_ASSERT(ndim <= all.capacity()); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:138:34: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘npy_intp’ {aka ‘long int’} [-Wsign-compare] 138 | SCITBX_ASSERT(grid.size_1d() == PyArray_Size(obj_ptr)); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:138:5: note: in expansion of macro ‘SCITBX_ASSERT’ 138 | SCITBX_ASSERT(grid.size_1d() == PyArray_Size(obj_ptr)); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp: In instantiation of ‘boost::python::api::object scitbx::af::boost_python::ref_flex_as_numpy_array(const scitbx::af::ref >&, bool, int) [with ElementType = long int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:204:3: required from here 191 | return ref_flex_as_numpy_array(O, optional, type_num); \ | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:86:23: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 86 | for(unsigned i=0;i > scitbx::af::boost_python::versa_flex_from_numpy_array(const boost::python::numpy::ndarray&) [with ElementType = long int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:204:3: required from here 199 | versa_flex_from_numpy_array(arr_obj)); \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:132:24: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘long int’} and ‘scitbx::af::small_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 132 | SCITBX_ASSERT(ndim <= all.capacity()); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:132:5: note: in expansion of macro ‘SCITBX_ASSERT’ 132 | SCITBX_ASSERT(ndim <= all.capacity()); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:138:34: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘npy_intp’ {aka ‘long int’} [-Wsign-compare] 138 | SCITBX_ASSERT(grid.size_1d() == PyArray_Size(obj_ptr)); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:138:5: note: in expansion of macro ‘SCITBX_ASSERT’ 138 | SCITBX_ASSERT(grid.size_1d() == PyArray_Size(obj_ptr)); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp: In instantiation of ‘boost::python::api::object scitbx::af::boost_python::ref_flex_as_numpy_array(const scitbx::af::ref >&, bool, int) [with ElementType = float]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:205:3: required from here 191 | return ref_flex_as_numpy_array(O, optional, type_num); \ | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:86:23: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 86 | for(unsigned i=0;i > scitbx::af::boost_python::versa_flex_from_numpy_array(const boost::python::numpy::ndarray&) [with ElementType = float]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:205:3: required from here 199 | versa_flex_from_numpy_array(arr_obj)); \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:132:24: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘long int’} and ‘scitbx::af::small_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 132 | SCITBX_ASSERT(ndim <= all.capacity()); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:132:5: note: in expansion of macro ‘SCITBX_ASSERT’ 132 | SCITBX_ASSERT(ndim <= all.capacity()); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:138:34: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘npy_intp’ {aka ‘long int’} [-Wsign-compare] 138 | SCITBX_ASSERT(grid.size_1d() == PyArray_Size(obj_ptr)); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:138:5: note: in expansion of macro ‘SCITBX_ASSERT’ 138 | SCITBX_ASSERT(grid.size_1d() == PyArray_Size(obj_ptr)); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp: In instantiation of ‘boost::python::api::object scitbx::af::boost_python::ref_flex_as_numpy_array(const scitbx::af::ref >&, bool, int) [with ElementType = double]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:206:3: required from here 191 | return ref_flex_as_numpy_array(O, optional, type_num); \ | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:86:23: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 86 | for(unsigned i=0;i > scitbx::af::boost_python::versa_flex_from_numpy_array(const boost::python::numpy::ndarray&) [with ElementType = double]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:206:3: required from here 199 | versa_flex_from_numpy_array(arr_obj)); \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:132:24: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘long int’} and ‘scitbx::af::small_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 132 | SCITBX_ASSERT(ndim <= all.capacity()); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:132:5: note: in expansion of macro ‘SCITBX_ASSERT’ 132 | SCITBX_ASSERT(ndim <= all.capacity()); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:138:34: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘npy_intp’ {aka ‘long int’} [-Wsign-compare] 138 | SCITBX_ASSERT(grid.size_1d() == PyArray_Size(obj_ptr)); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:138:5: note: in expansion of macro ‘SCITBX_ASSERT’ 138 | SCITBX_ASSERT(grid.size_1d() == PyArray_Size(obj_ptr)); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp: In instantiation of ‘boost::python::api::object scitbx::af::boost_python::ref_flex_as_numpy_array(const scitbx::af::ref >&, bool, int) [with ElementType = std::complex]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:207:3: required from here 191 | return ref_flex_as_numpy_array(O, optional, type_num); \ | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:86:23: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 86 | for(unsigned i=0;i > scitbx::af::boost_python::versa_flex_from_numpy_array(const boost::python::numpy::ndarray&) [with ElementType = std::complex]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:207:3: required from here 199 | versa_flex_from_numpy_array(arr_obj)); \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:132:24: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘long int’} and ‘scitbx::af::small_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 132 | SCITBX_ASSERT(ndim <= all.capacity()); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:132:5: note: in expansion of macro ‘SCITBX_ASSERT’ 132 | SCITBX_ASSERT(ndim <= all.capacity()); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:138:34: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘npy_intp’ {aka ‘long int’} [-Wsign-compare] 138 | SCITBX_ASSERT(grid.size_1d() == PyArray_Size(obj_ptr)); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:138:5: note: in expansion of macro ‘SCITBX_ASSERT’ 138 | SCITBX_ASSERT(grid.size_1d() == PyArray_Size(obj_ptr)); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp: In instantiation of ‘boost::python::api::object scitbx::af::boost_python::ref_flex_as_numpy_array(const scitbx::af::ref >&, bool, int) [with ElementType = signed char]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:208:3: required from here 191 | return ref_flex_as_numpy_array(O, optional, type_num); \ | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:86:23: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 86 | for(unsigned i=0;i > scitbx::af::boost_python::versa_flex_from_numpy_array(const boost::python::numpy::ndarray&) [with ElementType = signed char]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:208:3: required from here 199 | versa_flex_from_numpy_array(arr_obj)); \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:132:24: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘long int’} and ‘scitbx::af::small_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 132 | SCITBX_ASSERT(ndim <= all.capacity()); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:132:5: note: in expansion of macro ‘SCITBX_ASSERT’ 132 | SCITBX_ASSERT(ndim <= all.capacity()); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:138:34: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘npy_intp’ {aka ‘long int’} [-Wsign-compare] 138 | SCITBX_ASSERT(grid.size_1d() == PyArray_Size(obj_ptr)); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:138:5: note: in expansion of macro ‘SCITBX_ASSERT’ 138 | SCITBX_ASSERT(grid.size_1d() == PyArray_Size(obj_ptr)); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp: In instantiation of ‘boost::python::api::object scitbx::af::boost_python::ref_flex_as_numpy_array(const scitbx::af::ref >&, bool, int) [with ElementType = short int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:209:3: required from here 191 | return ref_flex_as_numpy_array(O, optional, type_num); \ | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:86:23: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 86 | for(unsigned i=0;i > scitbx::af::boost_python::versa_flex_from_numpy_array(const boost::python::numpy::ndarray&) [with ElementType = short int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:209:3: required from here 199 | versa_flex_from_numpy_array(arr_obj)); \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:132:24: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘long int’} and ‘scitbx::af::small_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 132 | SCITBX_ASSERT(ndim <= all.capacity()); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:132:5: note: in expansion of macro ‘SCITBX_ASSERT’ 132 | SCITBX_ASSERT(ndim <= all.capacity()); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:138:34: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘npy_intp’ {aka ‘long int’} [-Wsign-compare] 138 | SCITBX_ASSERT(grid.size_1d() == PyArray_Size(obj_ptr)); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:138:5: note: in expansion of macro ‘SCITBX_ASSERT’ 138 | SCITBX_ASSERT(grid.size_1d() == PyArray_Size(obj_ptr)); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp: In instantiation of ‘boost::python::api::object scitbx::af::boost_python::ref_flex_as_numpy_array(const scitbx::af::ref >&, bool, int) [with ElementType = unsigned char]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:214:3: required from here 191 | return ref_flex_as_numpy_array(O, optional, type_num); \ | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:86:23: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 86 | for(unsigned i=0;i > scitbx::af::boost_python::versa_flex_from_numpy_array(const boost::python::numpy::ndarray&) [with ElementType = unsigned char]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:214:3: required from here 199 | versa_flex_from_numpy_array(arr_obj)); \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:132:24: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘long int’} and ‘scitbx::af::small_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 132 | SCITBX_ASSERT(ndim <= all.capacity()); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:132:5: note: in expansion of macro ‘SCITBX_ASSERT’ 132 | SCITBX_ASSERT(ndim <= all.capacity()); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:138:34: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘npy_intp’ {aka ‘long int’} [-Wsign-compare] 138 | SCITBX_ASSERT(grid.size_1d() == PyArray_Size(obj_ptr)); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:138:5: note: in expansion of macro ‘SCITBX_ASSERT’ 138 | SCITBX_ASSERT(grid.size_1d() == PyArray_Size(obj_ptr)); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp: In instantiation of ‘boost::python::api::object scitbx::af::boost_python::ref_flex_as_numpy_array(const scitbx::af::ref >&, bool, int) [with ElementType = short unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:215:3: required from here 191 | return ref_flex_as_numpy_array(O, optional, type_num); \ | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:86:23: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 86 | for(unsigned i=0;i > scitbx::af::boost_python::versa_flex_from_numpy_array(const boost::python::numpy::ndarray&) [with ElementType = short unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:215:3: required from here 199 | versa_flex_from_numpy_array(arr_obj)); \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:132:24: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘long int’} and ‘scitbx::af::small_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 132 | SCITBX_ASSERT(ndim <= all.capacity()); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:132:5: note: in expansion of macro ‘SCITBX_ASSERT’ 132 | SCITBX_ASSERT(ndim <= all.capacity()); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:138:34: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘npy_intp’ {aka ‘long int’} [-Wsign-compare] 138 | SCITBX_ASSERT(grid.size_1d() == PyArray_Size(obj_ptr)); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:138:5: note: in expansion of macro ‘SCITBX_ASSERT’ 138 | SCITBX_ASSERT(grid.size_1d() == PyArray_Size(obj_ptr)); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp: In instantiation of ‘boost::python::api::object scitbx::af::boost_python::ref_flex_as_numpy_array(const scitbx::af::ref >&, bool, int) [with ElementType = unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:216:3: required from here 191 | return ref_flex_as_numpy_array(O, optional, type_num); \ | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:86:23: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 86 | for(unsigned i=0;i > scitbx::af::boost_python::versa_flex_from_numpy_array(const boost::python::numpy::ndarray&) [with ElementType = unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:216:3: required from here 199 | versa_flex_from_numpy_array(arr_obj)); \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:132:24: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘long int’} and ‘scitbx::af::small_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 132 | SCITBX_ASSERT(ndim <= all.capacity()); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:132:5: note: in expansion of macro ‘SCITBX_ASSERT’ 132 | SCITBX_ASSERT(ndim <= all.capacity()); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:138:34: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘npy_intp’ {aka ‘long int’} [-Wsign-compare] 138 | SCITBX_ASSERT(grid.size_1d() == PyArray_Size(obj_ptr)); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:138:5: note: in expansion of macro ‘SCITBX_ASSERT’ 138 | SCITBX_ASSERT(grid.size_1d() == PyArray_Size(obj_ptr)); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp: In instantiation of ‘boost::python::api::object scitbx::af::boost_python::ref_flex_as_numpy_array(const scitbx::af::ref >&, bool, int) [with ElementType = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:224:3: required from here 191 | return ref_flex_as_numpy_array(O, optional, type_num); \ | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:86:23: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 86 | for(unsigned i=0;i > scitbx::af::boost_python::versa_flex_from_numpy_array(const boost::python::numpy::ndarray&) [with ElementType = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:224:3: required from here 199 | versa_flex_from_numpy_array(arr_obj)); \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:132:24: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘long int’} and ‘scitbx::af::small_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 132 | SCITBX_ASSERT(ndim <= all.capacity()); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:132:5: note: in expansion of macro ‘SCITBX_ASSERT’ 132 | SCITBX_ASSERT(ndim <= all.capacity()); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:138:34: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘npy_intp’ {aka ‘long int’} [-Wsign-compare] 138 | SCITBX_ASSERT(grid.size_1d() == PyArray_Size(obj_ptr)); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:138:5: note: in expansion of macro ‘SCITBX_ASSERT’ 138 | SCITBX_ASSERT(grid.size_1d() == PyArray_Size(obj_ptr)); | ^~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/cubicle_neighbors_ext.cpp:3: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/cubicle_neighbors.hpp: In instantiation of ‘std::map > scitbx::cubicle_neighbors::neighbors_of(const scitbx::af::const_ref >&, const FloatType&) [with FloatType = double]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/cubicle_neighbors_ext.cpp:23:36: required from here 23 | .def("neighbors_of", &w_t::neighbors_of, ( | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/cubicle_neighbors.hpp:61:40: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const unsigned int’ [-Wsign-compare] 61 | if (i_cub[0] < 0 || i_cub[0] >= n_cubicles[0]) continue; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/cubicle_neighbors.hpp:63:40: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const unsigned int’ [-Wsign-compare] 63 | if (i_cub[1] < 0 || i_cub[1] >= n_cubicles[1]) continue; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/cubicle_neighbors.hpp:65:40: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const unsigned int’ [-Wsign-compare] 65 | if (i_cub[2] < 0 || i_cub[2] >= n_cubicles[2]) continue; g++ -o scitbx/glmtbx/boost_python/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/glmtbx/boost_python/ext.cc cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/cubicle_neighbors.hpp:4: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/cubicles.h: In instantiation of ‘scitbx::vec3 scitbx::cubicles::i_cubicle(const SiteType&) const [with SiteType = scitbx::vec3; CubicleContentType = std::vector::cubicle_site, std::allocator::cubicle_site> >; FloatType = double]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/cubicle_neighbors.hpp:43:30: required from ‘scitbx::cubicle_neighbors::cubicle_neighbors(const scitbx::af::const_ref >&, const FloatType&, const FloatType&) [with FloatType = double]’ 43 | cubicles_.i_cubicle(main_sites_cart[i_seq])); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/boost/python/object/value_holder.hpp:131:11: required from ‘boost::python::objects::value_holder::value_holder(PyObject*, A0, A1, A2) [with A0 = boost::python::objects::reference_to_value >&>; A1 = boost::python::objects::reference_to_value; A2 = boost::python::objects::reference_to_value; Value = scitbx::cubicle_neighbors<>; PyObject = _object]’ 131 | PyObject* self BOOST_PP_COMMA_IF(N) BOOST_PP_ENUM_BINARY_PARAMS_Z(1, N, A, a)) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 132 | : m_held( | ~~~~~~~~~ 133 | BOOST_PP_REPEAT_1ST(N, BOOST_PYTHON_UNFORWARD_LOCAL, nil) | ~ /usr/include/boost/python/object/make_holder.hpp:95:18: required from ‘static void boost::python::objects::make_holder<3>::apply::execute(PyObject*, t0, t1, t2) [with Holder = boost::python::objects::value_holder >; ArgList = boost::mpl::vector3 >&, const double&, const double&>; PyObject = _object; t0 = const scitbx::af::const_ref >&; t1 = const double&; t2 = const double&]’ 95 | try { | ~^ 96 | (new (memory) Holder( | ~~~~~~~~~~~~~~~~~~~~~ /usr/include/boost/python/detail/make_keyword_range_fn.hpp:63:47: required from ‘boost::python::api::object boost::python::detail::make_keyword_range_constructor(const CallPolicies&, const keyword_range&, Holder*, ArgList*, Arity*) [with ArgList = boost::mpl::vector3 >&, const double&, const double&>; Arity = boost::mpl::size >&, const double&, const double&> >; Holder = boost::python::objects::value_holder >; CallPolicies = boost::python::default_call_policies; keyword_range = std::pair]’ 63 | return detail::make_keyword_range_function( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 64 | objects::make_holder | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 65 | ::template apply::execute | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 66 | , policies | ~~~~~~~~~~ 67 | , kw); | ~~~~~ /usr/include/boost/python/init.hpp:310:66: required from ‘void boost::python::detail::def_init_aux(ClassT&, const Signature&, NArgs, const CallPoliciesT&, const char*, const keyword_range&) [with ClassT = boost::python::class_ >; CallPoliciesT = boost::python::default_call_policies; Signature = boost::mpl::vector3 >&, const double&, const double&>; NArgs = boost::mpl::size >&, const double&, const double&> >; keyword_range = std::pair]’ 310 | , detail::make_keyword_range_constructor( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 311 | policies | ~~~~~~~~ 312 | , keywords_ | ~~~~~~~~~~~ 313 | , (typename ClassT::metadata::holder*)0 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 314 | ) | ~ /usr/include/boost/python/init.hpp:377:31: required from ‘static void boost::python::detail::define_class_init_helper<0>::apply(ClassT&, const CallPoliciesT&, const Signature&, NArgs, const char*, const boost::python::detail::keyword_range&) [with ClassT = boost::python::class_ >; CallPoliciesT = boost::python::default_call_policies; Signature = boost::mpl::vector3 >&, const double&, const double&>; NArgs = boost::mpl::size >&, const double&, const double&> >; boost::python::detail::keyword_range = std::pair]’ 377 | detail::def_init_aux(cl, args, NArgs(), policies, doc, keywords); | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/boost/python/init.hpp:149:67: required from ‘void boost::python::init_base::visit(classT&) const [with classT = boost::python::class_ >; DerivedT = boost::python::init >&, const double&, const double&>]’ 149 | detail::define_class_init_helper::apply( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 150 | cl | ~~ 151 | , derived().call_policies() | ~~~~~~~~~~~~~~~~~~~~~~~~~~~ 152 | , signature() | ~~~~~~~~~~~~~ 153 | , n_arguments() | ~~~~~~~~~~~~~~~ 154 | , derived().doc_string() | ~~~~~~~~~~~~~~~~~~~~~~~~ 155 | , derived().keywords()); | ~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/boost/python/def_visitor.hpp:31:34: required from ‘static void boost::python::def_visitor_access::visit(const V&, classT&) [with V = boost::python::def_visitor >&, const double&, const double&> >; classT = boost::python::class_ >]’ 31 | v.derived_visitor().visit(c); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /usr/include/boost/python/def_visitor.hpp:67:34: required from ‘void boost::python::def_visitor::visit(classT&) const [with classT = boost::python::class_ >; DerivedVisitor = boost::python::init >&, const double&, const double&>]’ 67 | def_visitor_access::visit(*this, c); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /usr/include/boost/python/class.hpp:221:22: required from ‘boost::python::class_::self& boost::python::class_::def(const boost::python::def_visitor&) [with Derived = boost::python::init >&, const double&, const double&>; W = scitbx::cubicle_neighbors<>; X1 = boost::python::detail::not_specified; X2 = boost::python::detail::not_specified; X3 = boost::python::detail::not_specified; self = boost::python::class_ >]’ 221 | visitor.visit(*this); | ~~~~~~~~~~~~~^~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/cubicle_neighbors_ext.cpp:16:13: required from here 15 | class_("cubicle_neighbors", no_init) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 16 | .def(init< | ~~~~^~~~~~ 17 | af::const_ref > const&, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 18 | double const&, | ~~~~~~~~~~~~~~ 19 | double const&>(( | ~~~~~~~~~~~~~~~~ 20 | arg("main_sites_cart"), | ~~~~~~~~~~~~~~~~~~~~~~~ 21 | arg("cubicle_edge"), | ~~~~~~~~~~~~~~~~~~~~ 22 | arg("epsilon")=1.e-6))) | ~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/cubicles.h:176:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const unsigned int’ [-Wsign-compare] 176 | else if (j >= ref.accessor()[i]) j = ref.accessor()[i]-1; | ~~^~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/fftpack/gridding.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/fftpack/boost_python/fftpack_ext.cpp:4: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/fftpack/factorization.h: In constructor ‘scitbx::fftpack::factorization::factorization(std::size_t, bool)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/fftpack/factorization.h:64:32: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::tiny_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 64 | for (i = 0; red_n > 1 && i < opt_factors.size(); i++) { | ~~^~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/fftpack/factorization.h:67:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::tiny_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 67 | for (i = 0; i < opt_factors.size(); i++) { | ~~^~~~~~~~~~~~~~~~~~~~ g++ -o scitbx/graphics_utils/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/graphics_utils/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/scitbx_cubicle_neighbors_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_cubicle_neighbors_ext.so.0 scitbx/cubicle_neighbors_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/scitbx_cubicle_neighbors_ext.so.0.0.1' 'lib/scitbx_cubicle_neighbors_ext.so.0'->'lib/scitbx_cubicle_neighbors_ext.so.0.0.1' 'lib/scitbx_cubicle_neighbors_ext.so'->'lib/scitbx_cubicle_neighbors_ext.so.0.0.1' g++ -o scitbx/iso_surface/iso_surface_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/iso_surface/iso_surface_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/scitbx_array_family_flex_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_array_family_flex_ext.so.0 scitbx/array_family/boost_python/flex_ext.o scitbx/array_family/boost_python/flex_grid.o scitbx/array_family/boost_python/flex_bool.o scitbx/array_family/boost_python/flex_size_t.o scitbx/array_family/boost_python/flex_int.o scitbx/array_family/boost_python/flex_float.o scitbx/array_family/boost_python/flex_double.o scitbx/array_family/boost_python/flex_double_matrix.o scitbx/array_family/boost_python/flex_complex_double.o scitbx/array_family/boost_python/flex_std_string.o scitbx/array_family/boost_python/flex_random.o scitbx/array_family/boost_python/flex_sort.o scitbx/array_family/boost_python/flex_histogram.o scitbx/array_family/boost_python/flex_weighted_histogram.o scitbx/array_family/boost_python/flex_mean_and_variance.o scitbx/array_family/boost_python/flex_median.o scitbx/array_family/boost_python/flex_linear_interpolation.o scitbx/array_family/boost_python/flex_vec3_double.o scitbx/array_family/boost_python/flex_vec2_double.o scitbx/array_family/boost_python/flex_vec3_int.o scitbx/array_family/boost_python/flex_sym_mat3_double.o scitbx/array_family/boost_python/flex_mat3_double.o scitbx/array_family/boost_python/flex_tiny_size_t_2.o scitbx/array_family/boost_python/loops.o scitbx/array_family/boost_python/show_sizes.o scitbx/array_family/boost_python/numpy_bridge.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_python314 -lm -lboost_numpy314 Create symlinks for: 'lib/scitbx_array_family_flex_ext.so.0.0.1' 'lib/scitbx_array_family_flex_ext.so.0'->'lib/scitbx_array_family_flex_ext.so.0.0.1' 'lib/scitbx_array_family_flex_ext.so'->'lib/scitbx_array_family_flex_ext.so.0.0.1' g++ -o scitbx/lbfgs/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DSCITBX_LBFGS_HAVE_LBFGS_FEM -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgs/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/scitbx_glmtbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_glmtbx_ext.so.0 scitbx/glmtbx/boost_python/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/scitbx_glmtbx_ext.so.0.0.1' 'lib/scitbx_glmtbx_ext.so.0'->'lib/scitbx_glmtbx_ext.so.0.0.1' 'lib/scitbx_glmtbx_ext.so'->'lib/scitbx_glmtbx_ext.so.0.0.1' g++ -o scitbx/lbfgs/lbfgs_fem.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable scitbx/lbfgs/lbfgs_fem.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/io.hpp:8, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/close_chain.hpp:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/common.hpp:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/read.hpp:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/major_types.hpp:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem.hpp:10, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include/scitbx/lbfgs_fem.hpp:1, from scitbx/lbfgs/lbfgs_fem.cpp:1: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/utils/simple_streams.hpp: In member function ‘virtual void fem::utils::simple_ostream_to_char_ptr_and_size::put(char)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/utils/simple_streams.hpp:63:13: warning: comparison of integer expressions of different signedness: ‘fem::ssize_t’ {aka ‘long int’} and ‘fem::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 63 | if (i < sz) s[i++] = c; | ~~^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/common.hpp: In member function ‘void fem::common::getarg(int, fem::str_ref) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/common.hpp:40:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 40 | if (pos < 0 || pos >= command_line_args.buffer.size()) { | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/utils/string_to_double_fmt.hpp:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/read.hpp:9: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/utils/string_to_double.hpp: In member function ‘void fem::utils::string_to_double::convert(fem::utils::simple_istream&, unsigned int, int)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/utils/string_to_double.hpp:115:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const unsigned int’ [-Wsign-compare] 115 | if (dexp <= ad_hoc_limits::max_digit_count) { | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/read.hpp: In member function ‘double fem::read_loop::read_fmt_double()’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/read.hpp:653:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 653 | if (iw+1 != ed.size()) { | ~~~~~^~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/variant.hpp:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/major_types.hpp:7: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/utils/equivalence.hpp: In member function ‘void fem::utils::equivalence::array_alignment::infer_diffs0_from_diff_matrix()’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/utils/equivalence.hpp:93:28: warning: comparison of integer expressions of different signedness: ‘const fem::ssize_t’ {aka ‘const long int’} and ‘fem::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 93 | if (c0e[0] == i0) { | ~~~~~~~^~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/major_types.hpp:8: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/write.hpp: In destructor ‘fem::write_loop::~write_loop()’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/write.hpp:704:24: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 704 | while (pos < internal_file_len) { | ~~~~^~~~~~~~~~~~~~~~~~~ g++ -o lib/scitbx_graphics_utils_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_graphics_utils_ext.so.0 scitbx/graphics_utils/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/scitbx_graphics_utils_ext.so.0.0.1' 'lib/scitbx_graphics_utils_ext.so.0'->'lib/scitbx_graphics_utils_ext.so.0.0.1' 'lib/scitbx_graphics_utils_ext.so'->'lib/scitbx_graphics_utils_ext.so.0.0.1' g++ -o scitbx/lbfgsb/boost_python/lbfgsb_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/boost_python/lbfgsb_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/scitbx_iso_surface_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_iso_surface_ext.so.0 scitbx/iso_surface/iso_surface_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/scitbx_iso_surface_ext.so.0.0.1' 'lib/scitbx_iso_surface_ext.so.0'->'lib/scitbx_iso_surface_ext.so.0.0.1' 'lib/scitbx_iso_surface_ext.so'->'lib/scitbx_iso_surface_ext.so.0.0.1' g++ -o scitbx/linalg/boost_python/linalg_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/linalg/boost_python/linalg_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/linalg/boost_python/matrix.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/linalg/boost_python/matrix.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/linalg/boost_python/cholesky.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/linalg/boost_python/cholesky.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/serialization/base_256.h:2, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/floating_point_epsilon.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb.h:8, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/boost_python/lbfgsb_ext.cpp:3: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h: In instantiation of ‘void scitbx::lbfgsb::raw::mainlb(const int&, const int&, const ref1&, const ref1&, const ref1&, const ref1&, FloatType&, const ref1&, const FloatType&, const FloatType&, const ref2&, const ref2&, const ref2&, const ref2&, const ref2&, const ref2&, const ref2&, const ref2&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, std::string&, const int&, std::string&, const ref1&, const ref1&, const ref1&, bool) [with FloatType = double; std::string = std::__cxx11::basic_string]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:4433:11: required from ‘void scitbx::lbfgsb::raw::setulb(const int&, const int&, const ref1&, const ref1&, const ref1&, const ref1&, FloatType&, const ref1&, const FloatType&, const FloatType&, const ref1&, const ref1&, std::string&, const int&, std::string&, const ref1&, const ref1&, const ref1&, bool) [with FloatType = double; std::string = std::__cxx11::basic_string]’ 4433 | mainlb(n,m,x,l,u,nbd,f,g,factr,pgtol, | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 4434 | wa.get2(lws, n, m), | ~~~~~~~~~~~~~~~~~~~ 4435 | wa.get2(lwy, n, m), | ~~~~~~~~~~~~~~~~~~~ 4436 | wa.get2(lsy, m, m), | ~~~~~~~~~~~~~~~~~~~ 4437 | wa.get2(lss, m, m), | ~~~~~~~~~~~~~~~~~~~ 4438 | wa.get2(lyy, m, m), | ~~~~~~~~~~~~~~~~~~~ 4439 | wa.get2(lwt, m, m), | ~~~~~~~~~~~~~~~~~~~ 4440 | wa.get2(lwn, 2*m, 2*m), | ~~~~~~~~~~~~~~~~~~~~~~~ 4441 | wa.get2(lsnd, 2*m, 2*m), | ~~~~~~~~~~~~~~~~~~~~~~~~ 4442 | wa.get1(lz, n), | ~~~~~~~~~~~~~~~ 4443 | wa.get1(lr, n), | ~~~~~~~~~~~~~~~ 4444 | wa.get1(ld, n), | ~~~~~~~~~~~~~~~ 4445 | wa.get1(lt, n), | ~~~~~~~~~~~~~~~ 4446 | wa.get1(lwa, 8*m), | ~~~~~~~~~~~~~~~~~~ 4447 | wa.get1(lsg, m), | ~~~~~~~~~~~~~~~~ 4448 | wa.get1(lsgo, m), | ~~~~~~~~~~~~~~~~~ 4449 | wa.get1(lyg, m), | ~~~~~~~~~~~~~~~~ 4450 | wa.get1(lygo, m), | ~~~~~~~~~~~~~~~~~ 4451 | iwa.get1(1, n), | ~~~~~~~~~~~~~~~ 4452 | iwa.get1(n+1, n), | ~~~~~~~~~~~~~~~~~ 4453 | iwa.get1(2*n+1, n), | ~~~~~~~~~~~~~~~~~~~ 4454 | task,iprint,csave,lsave, | ~~~~~~~~~~~~~~~~~~~~~~~~ 4455 | ref1(&isave(22), 23), | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 4456 | dsave, | ~~~~~~ 4457 | enable_stp_init); | ~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb.h:142:22: required from ‘bool scitbx::lbfgsb::minimizer::process(const scitbx::af::ref&, const FloatType&, const scitbx::af::ref&, bool) [with FloatType = double]’ 142 | raw::setulb( | ~~~~~~~~~~~^ 143 | n_, | ~~~ 144 | m_, | ~~~ 145 | raw::ref1(x), | ~~~~~~~~~~~~~~~~~~~~~~~~ 146 | raw::ref1(l_.ref()), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 147 | raw::ref1(u_.ref()), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 148 | raw::ref1(nbd_.ref()), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~ 149 | f_, | ~~~ 150 | raw::ref1(g), | ~~~~~~~~~~~~~~~~~~~~~~~~ 151 | factr_, | ~~~~~~~ 152 | pgtol_, | ~~~~~~~ 153 | raw::ref1(wa_.ref()), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 154 | raw::ref1(iwa_.ref()), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~ 155 | task_, | ~~~~~~ 156 | iprint_, | ~~~~~~~~ 157 | csave_, | ~~~~~~~ 158 | raw::ref1(lsave_.ref()), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 159 | raw::ref1(isave_.ref()), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 160 | raw::ref1(dsave_.ref()), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 161 | enable_stp_init_); | ~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/boost_python/lbfgsb_ext.cpp:29:25: required from ‘static void scitbx::lbfgsb::{anonymous}::minimizer_wrappers::wrap() [with FloatType = double]’ 29 | .def("process", &w_t::process, ( | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/boost_python/lbfgsb_ext.cpp:112:37: required from here 112 | minimizer_wrappers::wrap(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3671:28: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] 3671 | SCITBX_ASSERT(x.size() == n); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3671:5: note: in expansion of macro ‘SCITBX_ASSERT’ 3671 | SCITBX_ASSERT(x.size() == n); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3672:28: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] 3672 | SCITBX_ASSERT(l.size() == n); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3672:5: note: in expansion of macro ‘SCITBX_ASSERT’ 3672 | SCITBX_ASSERT(l.size() == n); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3673:28: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] 3673 | SCITBX_ASSERT(u.size() == n); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3673:5: note: in expansion of macro ‘SCITBX_ASSERT’ 3673 | SCITBX_ASSERT(u.size() == n); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3674:30: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] 3674 | SCITBX_ASSERT(nbd.size() == n); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3674:5: note: in expansion of macro ‘SCITBX_ASSERT’ 3674 | SCITBX_ASSERT(nbd.size() == n); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3675:28: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] 3675 | SCITBX_ASSERT(g.size() == n); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3675:5: note: in expansion of macro ‘SCITBX_ASSERT’ 3675 | SCITBX_ASSERT(g.size() == n); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h: In instantiation of ‘void scitbx::lbfgsb::raw::write_ref1(const std::string&, const ref1&, const char*) [with ElementType = double; std::string = std::__cxx11::basic_string]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:974:19: required from ‘void scitbx::lbfgsb::raw::prn3lb(const int&, const ref1&, const FloatType&, const std::string&, const int&, const int&, const int&, const int&, const int&, const int&, const int&, const int&, const FloatType&, const FloatType&, const int&, const std::string&, const int&, const FloatType&, const FloatType&, const int&, const FloatType&, const FloatType&, const FloatType&) [with FloatType = double; std::string = std::__cxx11::basic_string]’ 974 | write_ref1(" X =", x); | ~~~~~~~~~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3786:15: required from ‘void scitbx::lbfgsb::raw::mainlb(const int&, const int&, const ref1&, const ref1&, const ref1&, const ref1&, FloatType&, const ref1&, const FloatType&, const FloatType&, const ref2&, const ref2&, const ref2&, const ref2&, const ref2&, const ref2&, const ref2&, const ref2&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, std::string&, const int&, std::string&, const ref1&, const ref1&, const ref1&, bool) [with FloatType = double; std::string = std::__cxx11::basic_string]’ 3786 | prn3lb(n,x,f,task,iprint,info,itfile, | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 3787 | iter,nfgv,nintol,nskip,nact,sbgnrm, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 3788 | zero,nint,word,iback,stp,xstep,k, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 3789 | cachyt,sbtime,lnscht); | ~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:4433:11: required from ‘void scitbx::lbfgsb::raw::setulb(const int&, const int&, const ref1&, const ref1&, const ref1&, const ref1&, FloatType&, const ref1&, const FloatType&, const FloatType&, const ref1&, const ref1&, std::string&, const int&, std::string&, const ref1&, const ref1&, const ref1&, bool) [with FloatType = double; std::string = std::__cxx11::basic_string]’ 4433 | mainlb(n,m,x,l,u,nbd,f,g,factr,pgtol, | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 4434 | wa.get2(lws, n, m), | ~~~~~~~~~~~~~~~~~~~ 4435 | wa.get2(lwy, n, m), | ~~~~~~~~~~~~~~~~~~~ 4436 | wa.get2(lsy, m, m), | ~~~~~~~~~~~~~~~~~~~ 4437 | wa.get2(lss, m, m), | ~~~~~~~~~~~~~~~~~~~ 4438 | wa.get2(lyy, m, m), | ~~~~~~~~~~~~~~~~~~~ 4439 | wa.get2(lwt, m, m), | ~~~~~~~~~~~~~~~~~~~ 4440 | wa.get2(lwn, 2*m, 2*m), | ~~~~~~~~~~~~~~~~~~~~~~~ 4441 | wa.get2(lsnd, 2*m, 2*m), | ~~~~~~~~~~~~~~~~~~~~~~~~ 4442 | wa.get1(lz, n), | ~~~~~~~~~~~~~~~ 4443 | wa.get1(lr, n), | ~~~~~~~~~~~~~~~ 4444 | wa.get1(ld, n), | ~~~~~~~~~~~~~~~ 4445 | wa.get1(lt, n), | ~~~~~~~~~~~~~~~ 4446 | wa.get1(lwa, 8*m), | ~~~~~~~~~~~~~~~~~~ 4447 | wa.get1(lsg, m), | ~~~~~~~~~~~~~~~~ 4448 | wa.get1(lsgo, m), | ~~~~~~~~~~~~~~~~~ 4449 | wa.get1(lyg, m), | ~~~~~~~~~~~~~~~~ 4450 | wa.get1(lygo, m), | ~~~~~~~~~~~~~~~~~ 4451 | iwa.get1(1, n), | ~~~~~~~~~~~~~~~ 4452 | iwa.get1(n+1, n), | ~~~~~~~~~~~~~~~~~ 4453 | iwa.get1(2*n+1, n), | ~~~~~~~~~~~~~~~~~~~ 4454 | task,iprint,csave,lsave, | ~~~~~~~~~~~~~~~~~~~~~~~~ 4455 | ref1(&isave(22), 23), | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 4456 | dsave, | ~~~~~~ 4457 | enable_stp_init); | ~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb.h:142:22: required from ‘bool scitbx::lbfgsb::minimizer::process(const scitbx::af::ref&, const FloatType&, const scitbx::af::ref&, bool) [with FloatType = double]’ 142 | raw::setulb( | ~~~~~~~~~~~^ 143 | n_, | ~~~ 144 | m_, | ~~~ 145 | raw::ref1(x), | ~~~~~~~~~~~~~~~~~~~~~~~~ 146 | raw::ref1(l_.ref()), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 147 | raw::ref1(u_.ref()), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 148 | raw::ref1(nbd_.ref()), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~ 149 | f_, | ~~~ 150 | raw::ref1(g), | ~~~~~~~~~~~~~~~~~~~~~~~~ 151 | factr_, | ~~~~~~~ 152 | pgtol_, | ~~~~~~~ 153 | raw::ref1(wa_.ref()), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 154 | raw::ref1(iwa_.ref()), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~ 155 | task_, | ~~~~~~ 156 | iprint_, | ~~~~~~~~ 157 | csave_, | ~~~~~~~ 158 | raw::ref1(lsave_.ref()), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 159 | raw::ref1(isave_.ref()), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 160 | raw::ref1(dsave_.ref()), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 161 | enable_stp_init_); | ~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/boost_python/lbfgsb_ext.cpp:29:25: required from ‘static void scitbx::lbfgsb::{anonymous}::minimizer_wrappers::wrap() [with FloatType = double]’ 29 | .def("process", &w_t::process, ( | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/boost_python/lbfgsb_ext.cpp:112:37: required from here 112 | minimizer_wrappers::wrap(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:184:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 184 | for(int i=1;i<=a.size();i++) { | ~^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:188:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 188 | for(int j=0;j::minimizer(const int&, const int&, scitbx::af::shared, scitbx::af::shared, scitbx::af::shared, bool, const FloatType&, const FloatType&, const int&) [with FloatType = double]’: /usr/include/boost/python/object/value_holder.hpp:131:11: required from ‘boost::python::objects::value_holder::value_holder(PyObject*, A0, A1, A2, A3, A4, A5, A6, A7, A8) [with A0 = boost::python::objects::reference_to_value; A1 = boost::python::objects::reference_to_value; A2 = boost::python::objects::reference_to_value >; A3 = boost::python::objects::reference_to_value >; A4 = boost::python::objects::reference_to_value >; A5 = bool; A6 = boost::python::objects::reference_to_value; A7 = boost::python::objects::reference_to_value; A8 = boost::python::objects::reference_to_value; Value = scitbx::lbfgsb::minimizer; PyObject = _object]’ 131 | PyObject* self BOOST_PP_COMMA_IF(N) BOOST_PP_ENUM_BINARY_PARAMS_Z(1, N, A, a)) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 132 | : m_held( | ~~~~~~~~~ 133 | BOOST_PP_REPEAT_1ST(N, BOOST_PYTHON_UNFORWARD_LOCAL, nil) | ~ /usr/include/boost/python/object/make_holder.hpp:95:18: required from ‘static void boost::python::objects::make_holder<9>::apply::execute(PyObject*, t0, t1, t2, t3, t4, t5, t6, t7, t8) [with Holder = boost::python::objects::value_holder >; ArgList = boost::mpl::vector9, scitbx::af::shared, scitbx::af::shared, bool, const double&, const double&, const int&>; PyObject = _object; t0 = const int&; t1 = const int&; t2 = scitbx::af::shared; t3 = scitbx::af::shared; t4 = scitbx::af::shared; t5 = bool; t6 = const double&; t7 = const double&; t8 = const int&]’ 95 | try { | ~^ 96 | (new (memory) Holder( | ~~~~~~~~~~~~~~~~~~~~~ /usr/include/boost/python/detail/make_keyword_range_fn.hpp:63:47: required from ‘boost::python::api::object boost::python::detail::make_keyword_range_constructor(const CallPolicies&, const keyword_range&, Holder*, ArgList*, Arity*) [with ArgList = boost::mpl::vector9, scitbx::af::shared, scitbx::af::shared, bool, const double&, const double&, const int&>; Arity = boost::mpl::size, scitbx::af::shared, scitbx::af::shared, bool, const double&, const double&, const int&> >; Holder = boost::python::objects::value_holder >; CallPolicies = boost::python::default_call_policies; keyword_range = std::pair]’ 63 | return detail::make_keyword_range_function( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 64 | objects::make_holder | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 65 | ::template apply::execute | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 66 | , policies | ~~~~~~~~~~ 67 | , kw); | ~~~~~ /usr/include/boost/python/init.hpp:310:66: required from ‘void boost::python::detail::def_init_aux(ClassT&, const Signature&, NArgs, const CallPoliciesT&, const char*, const keyword_range&) [with ClassT = boost::python::class_, not_specified, not_specified, not_specified>; CallPoliciesT = boost::python::default_call_policies; Signature = boost::mpl::vector9, scitbx::af::shared, scitbx::af::shared, bool, const double&, const double&, const int&>; NArgs = boost::mpl::size, scitbx::af::shared, scitbx::af::shared, bool, const double&, const double&, const int&> >; keyword_range = std::pair]’ 310 | , detail::make_keyword_range_constructor( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 311 | policies | ~~~~~~~~ 312 | , keywords_ | ~~~~~~~~~~~ 313 | , (typename ClassT::metadata::holder*)0 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 314 | ) | ~ /usr/include/boost/python/init.hpp:377:31: required from ‘static void boost::python::detail::define_class_init_helper<0>::apply(ClassT&, const CallPoliciesT&, const Signature&, NArgs, const char*, const boost::python::detail::keyword_range&) [with ClassT = boost::python::class_, boost::python::detail::not_specified, boost::python::detail::not_specified, boost::python::detail::not_specified>; CallPoliciesT = boost::python::default_call_policies; Signature = boost::mpl::vector9, scitbx::af::shared, scitbx::af::shared, bool, const double&, const double&, const int&>; NArgs = boost::mpl::size, scitbx::af::shared, scitbx::af::shared, bool, const double&, const double&, const int&> >; boost::python::detail::keyword_range = std::pair]’ 377 | detail::def_init_aux(cl, args, NArgs(), policies, doc, keywords); | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/boost/python/init.hpp:149:67: required from ‘void boost::python::init_base::visit(classT&) const [with classT = boost::python::class_, boost::python::detail::not_specified, boost::python::detail::not_specified, boost::python::detail::not_specified>; DerivedT = boost::python::init, scitbx::af::shared, scitbx::af::shared, bool, const double&, const double&, const int&, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_>]’ 149 | detail::define_class_init_helper::apply( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 150 | cl | ~~ 151 | , derived().call_policies() | ~~~~~~~~~~~~~~~~~~~~~~~~~~~ 152 | , signature() | ~~~~~~~~~~~~~ 153 | , n_arguments() | ~~~~~~~~~~~~~~~ 154 | , derived().doc_string() | ~~~~~~~~~~~~~~~~~~~~~~~~ 155 | , derived().keywords()); | ~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/boost/python/def_visitor.hpp:31:34: required from ‘static void boost::python::def_visitor_access::visit(const V&, classT&) [with V = boost::python::def_visitor, scitbx::af::shared, scitbx::af::shared, bool, const double&, const double&, const int&, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_> >; classT = boost::python::class_, boost::python::detail::not_specified, boost::python::detail::not_specified, boost::python::detail::not_specified>]’ 31 | v.derived_visitor().visit(c); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /usr/include/boost/python/def_visitor.hpp:67:34: required from ‘void boost::python::def_visitor::visit(classT&) const [with classT = boost::python::class_, boost::python::detail::not_specified, boost::python::detail::not_specified, boost::python::detail::not_specified>; DerivedVisitor = boost::python::init, scitbx::af::shared, scitbx::af::shared, bool, const double&, const double&, const int&, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_>]’ 67 | def_visitor_access::visit(*this, c); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /usr/include/boost/python/class.hpp:221:22: required from ‘boost::python::class_::self& boost::python::class_::def(const boost::python::def_visitor&) [with Derived = boost::python::init, scitbx::af::shared, scitbx::af::shared, bool, const double&, const double&, const int&, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_>; W = scitbx::lbfgsb::minimizer; X1 = boost::python::detail::not_specified; X2 = boost::python::detail::not_specified; X3 = boost::python::detail::not_specified; self = boost::python::class_, boost::python::detail::not_specified, boost::python::detail::not_specified, boost::python::detail::not_specified>]’ 221 | visitor.visit(*this); | ~~~~~~~~~~~~~^~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/boost_python/lbfgsb_ext.cpp:20:13: required from ‘static void scitbx::lbfgsb::{anonymous}::minimizer_wrappers::wrap() [with FloatType = double]’ 19 | class_("minimizer", no_init) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 20 | .def(init, | ~~~~~~~~~~~~~~~~~~~~~~ 23 | af::shared, | ~~~~~~~~~~~~~~~~~~~~~~ 24 | af::shared, | ~~~~~~~~~~~~~~~~ 25 | bool, | ~~~~~ 26 | FloatType const&, | ~~~~~~~~~~~~~~~~~ 27 | FloatType const&, | ~~~~~~~~~~~~~~~~~ 28 | int const&>()) | ~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/boost_python/lbfgsb_ext.cpp:112:37: required from here 112 | minimizer_wrappers::wrap(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb.h:118:32: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] 118 | SCITBX_ASSERT(l.size() == n); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb.h:118:9: note: in expansion of macro ‘SCITBX_ASSERT’ 118 | SCITBX_ASSERT(l.size() == n); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb.h:119:32: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] 119 | SCITBX_ASSERT(u.size() == n); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb.h:119:9: note: in expansion of macro ‘SCITBX_ASSERT’ 119 | SCITBX_ASSERT(u.size() == n); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb.h:120:34: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] 120 | SCITBX_ASSERT(nbd.size() == n); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb.h:120:9: note: in expansion of macro ‘SCITBX_ASSERT’ 120 | SCITBX_ASSERT(nbd.size() == n); | ^~~~~~~~~~~~~ g++ -o lib/scitbx_fftpack_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_fftpack_ext.so.0 scitbx/fftpack/boost_python/fftpack_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lomptbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/scitbx_fftpack_ext.so.0.0.1' 'lib/scitbx_fftpack_ext.so.0'->'lib/scitbx_fftpack_ext.so.0.0.1' 'lib/scitbx_fftpack_ext.so'->'lib/scitbx_fftpack_ext.so.0.0.1' g++ -o scitbx/linalg/boost_python/householder.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/linalg/boost_python/householder.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/linalg/boost_python/svd.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/linalg/boost_python/svd.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/scitbx_lbfgsb_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_lbfgsb_ext.so.0 scitbx/lbfgsb/boost_python/lbfgsb_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_python314 -lm -lboost_timer Create symlinks for: 'lib/scitbx_lbfgsb_ext.so.0.0.1' 'lib/scitbx_lbfgsb_ext.so.0'->'lib/scitbx_lbfgsb_ext.so.0.0.1' 'lib/scitbx_lbfgsb_ext.so'->'lib/scitbx_lbfgsb_ext.so.0.0.1' g++ -o scitbx/linalg/boost_python/eigensystem.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/linalg/boost_python/eigensystem.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/scitbx_array_family_shared_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_array_family_shared_ext.so.0 scitbx/array_family/boost_python/shared_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_python314 -lm -lboost_numpy314 Create symlinks for: 'lib/scitbx_array_family_shared_ext.so.0.0.1' 'lib/scitbx_array_family_shared_ext.so.0'->'lib/scitbx_array_family_shared_ext.so.0.0.1' 'lib/scitbx_array_family_shared_ext.so'->'lib/scitbx_array_family_shared_ext.so.0.0.1' g++ -o scitbx/linalg/boost_python/lapack_fem_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/linalg/boost_python/lapack_fem_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/lstbx/boost_python/lstbx_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lstbx/boost_python/lstbx_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/lstbx/boost_python/normal_equations.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lstbx/boost_python/normal_equations.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/scitbx_lbfgs_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_lbfgs_ext.so.0 scitbx/lbfgs/ext.o scitbx/lbfgs/lbfgs_fem.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/scitbx_lbfgs_ext.so.0.0.1' 'lib/scitbx_lbfgs_ext.so.0'->'lib/scitbx_lbfgs_ext.so.0.0.1' 'lib/scitbx_lbfgs_ext.so'->'lib/scitbx_lbfgs_ext.so.0.0.1' g++ -o scitbx/math/boost_python/math_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/boost_python/math_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/basic_statistics.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/boost_python/basic_statistics.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/mat3.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/sym_mat3.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/linalg/boost_python/lapack_fem_bpl.cpp:5: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/linalg/boost_python/lapack_fem_bpl.cpp: In function ‘int scitbx::lapack::boost_python::dsyev_wrapper(const std::string&, const std::string&, const scitbx::af::ref >&, const scitbx::af::ref&, bool)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/linalg/boost_python/lapack_fem_bpl.cpp:246:28: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 246 | SCITBX_ASSERT(w.size() == n); | ~~~~~~~~~^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/linalg/boost_python/lapack_fem_bpl.cpp:246:5: note: in expansion of macro ‘SCITBX_ASSERT’ 246 | SCITBX_ASSERT(w.size() == n); | ^~~~~~~~~~~~~ g++ -o scitbx/math/boost_python/gaussian.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/boost_python/gaussian.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/golay.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/boost_python/golay.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/scitbx_linalg_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_linalg_ext.so.0 scitbx/linalg/boost_python/linalg_ext.o scitbx/linalg/boost_python/matrix.o scitbx/linalg/boost_python/cholesky.o scitbx/linalg/boost_python/householder.o scitbx/linalg/boost_python/svd.o scitbx/linalg/boost_python/eigensystem.o scitbx/linalg/boost_python/lapack_fem_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/scitbx_linalg_ext.so.0.0.1' 'lib/scitbx_linalg_ext.so.0'->'lib/scitbx_linalg_ext.so.0.0.1' 'lib/scitbx_linalg_ext.so'->'lib/scitbx_linalg_ext.so.0.0.1' g++ -o scitbx/math/boost_python/minimum_covering_sphere.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/boost_python/minimum_covering_sphere.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/principal_axes_of_inertia.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/boost_python/principal_axes_of_inertia.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/row_echelon.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/boost_python/row_echelon.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/tensor_rank_2.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/boost_python/tensor_rank_2.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/scitbx_lstbx_normal_equations_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_lstbx_normal_equations_ext.so.0 scitbx/lstbx/boost_python/lstbx_ext.o scitbx/lstbx/boost_python/normal_equations.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/scitbx_lstbx_normal_equations_ext.so.0.0.1' 'lib/scitbx_lstbx_normal_equations_ext.so.0'->'lib/scitbx_lstbx_normal_equations_ext.so.0.0.1' 'lib/scitbx_lstbx_normal_equations_ext.so'->'lib/scitbx_lstbx_normal_equations_ext.so.0.0.1' g++ -o scitbx/math/boost_python/chebyshev.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/boost_python/chebyshev.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/icosahedron.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/boost_python/icosahedron.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/slatec.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/boost_python/slatec.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/line_search.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/boost_python/line_search.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/r3_rotation.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/boost_python/r3_rotation.cpp g++ -o scitbx/math/boost_python/resample.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/boost_python/resample.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/quadrature.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/boost_python/quadrature.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/unimodular_generator.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/boost_python/unimodular_generator.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/halton.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/boost_python/halton.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/least_squares_plane.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/boost_python/least_squares_plane.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/continued_fraction.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/boost_python/continued_fraction.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/numeric_limits.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/boost_python/numeric_limits.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/distributions.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/boost_python/distributions.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/exp_functions.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/boost_python/exp_functions.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/zernike.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/boost_python/zernike.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/zernike_moments.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/boost_python/zernike_moments.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/2d_zernike_moments.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/boost_python/2d_zernike_moments.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/weighted_covariance.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/boost_python/weighted_covariance.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/rotation.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/boost_python/rotation.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/interpolation.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/boost_python/interpolation.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/tetrahedron.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/boost_python/tetrahedron.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/angle_derivative.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/boost_python/angle_derivative.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/minpack/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/minpack/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/r3_utils_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/r3_utils_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/random/boost_python/random_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/random/boost_python/random_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/minpack/raw.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/minpack/levenberg_marquardt.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/minpack/ext.cpp:4: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/minpack/levenberg_marquardt.h: In member function ‘void scitbx::minpack::levenberg_marquardt::process_fvec(const scitbx::af::const_ref&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/minpack/levenberg_marquardt.h:80:35: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 80 | SCITBX_ASSERT(fvec.size() == m); | ~~~~~~~~~~~~^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/minpack/levenberg_marquardt.h:80:9: note: in expansion of macro ‘SCITBX_ASSERT’ 80 | SCITBX_ASSERT(fvec.size() == m); | ^~~~~~~~~~~~~ g++ -o scitbx/random/boost_python/basic_distributions.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/random/boost_python/basic_distributions.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/rigid_body/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/rigid_body/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/scitbx_minpack_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_minpack_ext.so.0 scitbx/minpack/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lscitbx_minpack -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/scitbx_minpack_ext.so.0.0.1' 'lib/scitbx_minpack_ext.so.0'->'lib/scitbx_minpack_ext.so.0.0.1' 'lib/scitbx_minpack_ext.so'->'lib/scitbx_minpack_ext.so.0.0.1' g++ -o scitbx/sparse/boost_python/vector.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/sparse/boost_python/vector.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny_plain.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/vec3.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/mat3.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/rotr3.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/rigid_body/spatial_lib.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/rigid_body/featherstone.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/rigid_body/tardy.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/rigid_body/ext.cpp:14: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h: In instantiation of ‘scitbx::af::tiny::tiny(const OtherElementType*, const OtherElementType*) [with OtherElementType = double; ElementType = double; long unsigned int N = 4]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/rigid_body/joint_lib.h:361:21: required from ‘scitbx::rotr3 scitbx::rigid_body::joint_lib::six_dof_aja_simplified(const scitbx::vec3&, const scitbx::af::const_ref&) [with FloatType = double]’ 361 | af::tiny qe(&q[0], &q[4]); | ^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/rigid_body/ext.cpp:24:49: required from here 24 | result = joint_lib::six_dof_aja_simplified(center_of_mass, q); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/detail/tiny_helpers.h:148:20: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘scitbx::af::tiny_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 148 | if (last - first != this->size()) throw_range_error(); \ | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:30:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_TINY_CONVENIENCE_CONSTRUCTORS’ 30 | SCITBX_ARRAY_FAMILY_TINY_CONVENIENCE_CONSTRUCTORS(tiny) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -o scitbx/sparse/boost_python/matrix.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/sparse/boost_python/matrix.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/accessors/flex_grid.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa_matrix.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/rigid_body/spatial_lib.h:5: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small_plain.h: In instantiation of ‘scitbx::af::small_plain::small_plain(const ElementType*, const ElementType*) [with ElementType = double; long unsigned int N = 6]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small.h:44:33: required from ‘scitbx::af::small::small(const ElementType*, const ElementType*) [with ElementType = double; long unsigned int N = 6]’ 44 | : base_class(first, last) | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/rigid_body/featherstone.h:683:31: required from ‘scitbx::af::shared > scitbx::rigid_body::featherstone::system_model::inverse_dynamics(const scitbx::af::const_ref >&, const scitbx::af::const_ref >&, const scitbx::af::const_ref&) [with FloatType = double]’ 683 | tau_array[ib] = af::small(f[ib].begin(), f[ib].end()); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/rigid_body/featherstone.h:705:21: required from ‘scitbx::af::shared scitbx::rigid_body::featherstone::system_model::inverse_dynamics_packed(const scitbx::af::const_ref&, const scitbx::af::const_ref&, const scitbx::af::const_ref&) [with FloatType = double]’ 705 | tau_array = inverse_dynamics( | ^~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/rigid_body/ext.cpp:120:46: required from here 120 | .def("inverse_dynamics_packed", &wt::inverse_dynamics_packed, ( | ^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small_plain.h:59:15: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘long int’ [-Wsign-compare] 59 | if (N < last - first) throw_range_error(); | ~~^~~~~~~~~~~~~~ g++ -o lib/scitbx_math_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_math_ext.so.0 scitbx/math/boost_python/math_ext.o scitbx/math/boost_python/basic_statistics.o scitbx/math/boost_python/gaussian.o scitbx/math/boost_python/golay.o scitbx/math/boost_python/minimum_covering_sphere.o scitbx/math/boost_python/principal_axes_of_inertia.o scitbx/math/boost_python/row_echelon.o scitbx/math/boost_python/tensor_rank_2.o scitbx/math/boost_python/chebyshev.o scitbx/math/boost_python/icosahedron.o scitbx/math/boost_python/slatec.o scitbx/math/boost_python/line_search.o scitbx/math/boost_python/r3_rotation.o scitbx/math/boost_python/resample.o scitbx/math/boost_python/quadrature.o scitbx/math/boost_python/unimodular_generator.o scitbx/math/boost_python/halton.o scitbx/math/boost_python/least_squares_plane.o scitbx/math/boost_python/continued_fraction.o scitbx/math/boost_python/numeric_limits.o scitbx/math/boost_python/distributions.o scitbx/math/boost_python/exp_functions.o scitbx/math/boost_python/zernike.o scitbx/math/boost_python/zernike_moments.o scitbx/math/boost_python/2d_zernike_moments.o scitbx/math/boost_python/weighted_covariance.o scitbx/math/boost_python/rotation.o scitbx/math/boost_python/interpolation.o scitbx/math/boost_python/tetrahedron.o scitbx/math/boost_python/angle_derivative.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lscitbx_slatec -lscitbx_boost_python -lboost_thread -lboost_python314 -lm In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/mat3.h:5: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/rigid_body/tardy.h: In instantiation of ‘scitbx::af::shared > > scitbx::rigid_body::tardy::construct_bodies(const scitbx::af::const_ref >&, const scitbx::af::const_ref&, const boost::python::api::object&, const FloatType&) [with FloatType = double]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/rigid_body/tardy.h:203:54: required from ‘scitbx::rigid_body::tardy::model::model(const boost::python::api::object&, const scitbx::af::shared >&, const scitbx::af::shared&, const boost::python::api::object&, const boost::python::api::object&, const ft&) [with FloatType = double; ft = double]’ 203 | featherstone::system_model(construct_bodies( | ~~~~~~~~~~~~~~~~^ 204 | sites_.const_ref(), | ~~~~~~~~~~~~~~~~~~~ 205 | masses_.const_ref(), | ~~~~~~~~~~~~~~~~~~~~ 206 | tardy_tree_.attr("cluster_manager"), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 207 | near_singular_hinges_angular_tolerance_deg_)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/boost/python/object/value_holder.hpp:131:11: required from ‘boost::python::objects::value_holder::value_holder(PyObject*, A0, A1, A2, A3, A4, A5) [with A0 = boost::python::objects::reference_to_value; A1 = boost::python::objects::reference_to_value >&>; A2 = boost::python::objects::reference_to_value&>; A3 = boost::python::objects::reference_to_value; A4 = boost::python::objects::reference_to_value; A5 = boost::python::objects::reference_to_value; Value = scitbx::rigid_body::tardy::model<>; PyObject = _object]’ 131 | PyObject* self BOOST_PP_COMMA_IF(N) BOOST_PP_ENUM_BINARY_PARAMS_Z(1, N, A, a)) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 132 | : m_held( | ~~~~~~~~~ 133 | BOOST_PP_REPEAT_1ST(N, BOOST_PYTHON_UNFORWARD_LOCAL, nil) | ~ /usr/include/boost/python/object/make_holder.hpp:95:18: required from ‘static void boost::python::objects::make_holder<6>::apply::execute(PyObject*, t0, t1, t2, t3, t4, t5) [with Holder = boost::python::objects::value_holder >; ArgList = boost::mpl::joint_view >&, const scitbx::af::shared&, const boost::python::api::object&, const boost::python::api::object&, boost::python::optional, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_> >, boost::python::optional >; PyObject = _object; t0 = const boost::python::api::object&; t1 = const scitbx::af::shared >&; t2 = const scitbx::af::shared&; t3 = const boost::python::api::object&; t4 = const boost::python::api::object&; t5 = const double&]’ 95 | try { | ~^ 96 | (new (memory) Holder( | ~~~~~~~~~~~~~~~~~~~~~ /usr/include/boost/python/detail/make_keyword_range_fn.hpp:63:47: required from ‘boost::python::api::object boost::python::detail::make_keyword_range_constructor(const CallPolicies&, const keyword_range&, Holder*, ArgList*, Arity*) [with ArgList = boost::mpl::joint_view >&, const scitbx::af::shared&, const boost::python::api::object&, const boost::python::api::object&, boost::python::optional, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_> >, boost::python::optional >; Arity = boost::mpl::size >&, const scitbx::af::shared&, const boost::python::api::object&, const boost::python::api::object&, boost::python::optional, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_> >, boost::python::optional > >; Holder = boost::python::objects::value_holder >; CallPolicies = boost::python::default_call_policies; keyword_range = std::pair]’ 63 | return detail::make_keyword_range_function( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 64 | objects::make_holder | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 65 | ::template apply::execute | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 66 | , policies | ~~~~~~~~~~ 67 | , kw); | ~~~~~ /usr/include/boost/python/init.hpp:310:66: required from ‘void boost::python::detail::def_init_aux(ClassT&, const Signature&, NArgs, const CallPoliciesT&, const char*, const keyword_range&) [with ClassT = boost::python::class_, boost::python::bases >, boost::noncopyable_::noncopyable>; CallPoliciesT = boost::python::default_call_policies; Signature = boost::mpl::joint_view >&, const scitbx::af::shared&, const boost::python::api::object&, const boost::python::api::object&, boost::python::optional, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_> >, boost::python::optional >; NArgs = boost::mpl::size >&, const scitbx::af::shared&, const boost::python::api::object&, const boost::python::api::object&, boost::python::optional, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_> >, boost::python::optional > >; keyword_range = std::pair]’ 310 | , detail::make_keyword_range_constructor( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 311 | policies | ~~~~~~~~ 312 | , keywords_ | ~~~~~~~~~~~ 313 | , (typename ClassT::metadata::holder*)0 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 314 | ) | ~ /usr/include/boost/python/init.hpp:344:31: required from ‘static void boost::python::detail::define_class_init_helper::apply(ClassT&, const CallPoliciesT&, const Signature&, NArgs, const char*, boost::python::detail::keyword_range) [with ClassT = boost::python::class_, boost::python::bases >, boost::noncopyable_::noncopyable>; CallPoliciesT = boost::python::default_call_policies; Signature = boost::mpl::joint_view >&, const scitbx::af::shared&, const boost::python::api::object&, const boost::python::api::object&, boost::python::optional, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_> >, boost::python::optional >; NArgs = boost::mpl::size >&, const scitbx::af::shared&, const boost::python::api::object&, const boost::python::api::object&, boost::python::optional, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_> >, boost::python::optional > >; int NDefaults = 1; boost::python::detail::keyword_range = std::pair]’ 344 | detail::def_init_aux(cl, args, NArgs(), policies, doc, keywords); | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/boost/python/init.hpp:149:67: required from ‘void boost::python::init_base::visit(classT&) const [with classT = boost::python::class_, boost::python::bases >, boost::noncopyable_::noncopyable>; DerivedT = boost::python::init >&, const scitbx::af::shared&, const boost::python::api::object&, const boost::python::api::object&, boost::python::optional >]’ 149 | detail::define_class_init_helper::apply( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 150 | cl | ~~ 151 | , derived().call_policies() | ~~~~~~~~~~~~~~~~~~~~~~~~~~~ 152 | , signature() | ~~~~~~~~~~~~~ 153 | , n_arguments() | ~~~~~~~~~~~~~~~ 154 | , derived().doc_string() | ~~~~~~~~~~~~~~~~~~~~~~~~ 155 | , derived().keywords()); | ~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/boost/python/def_visitor.hpp:31:34: required from ‘static void boost::python::def_visitor_access::visit(const V&, classT&) [with V = boost::python::def_visitor >&, const scitbx::af::shared&, const boost::python::api::object&, const boost::python::api::object&, boost::python::optional > >; classT = boost::python::class_, boost::python::bases >, boost::noncopyable_::noncopyable>]’ 31 | v.derived_visitor().visit(c); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /usr/include/boost/python/def_visitor.hpp:67:34: required from ‘void boost::python::def_visitor::visit(classT&) const [with classT = boost::python::class_, boost::python::bases >, boost::noncopyable_::noncopyable>; DerivedVisitor = boost::python::init >&, const scitbx::af::shared&, const boost::python::api::object&, const boost::python::api::object&, boost::python::optional >]’ 67 | def_visitor_access::visit(*this, c); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /usr/include/boost/python/class.hpp:221:22: required from ‘boost::python::class_::self& boost::python::class_::def(const boost::python::def_visitor&) [with Derived = boost::python::init >&, const scitbx::af::shared&, const boost::python::api::object&, const boost::python::api::object&, boost::python::optional >; W = scitbx::rigid_body::tardy::model<>; X1 = boost::python::bases >; X2 = boost::noncopyable_::noncopyable; X3 = boost::python::detail::not_specified; self = boost::python::class_, boost::python::bases >, boost::noncopyable_::noncopyable>]’ 221 | visitor.visit(*this); | ~~~~~~~~~~~~~^~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/rigid_body/ext.cpp:151:13: required from here 146 | class_ >, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 148 | boost::noncopyable | ~~~~~~~~~~~~~~~~~~ 149 | >("tardy_model", no_init) | ~~~~~~~~~~~~~~~~~~~~~~~~~ 150 | .enable_pickling() | ~~~~~~~~~~~~~~~~~~ 151 | .def(init< | ~~~~^~~~~~ 152 | object const&, | ~~~~~~~~~~~~~~ 153 | af::shared > const&, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 154 | af::shared const&, | ~~~~~~~~~~~~~~~~~~~~~~ 155 | object const&, | ~~~~~~~~~~~~~~ 156 | object const&, | ~~~~~~~~~~~~~~ 157 | optional >(( | ~~~~~~~~~~~~~~~~~~~~~~~ 158 | arg("labels"), | ~~~~~~~~~~~~~~ 159 | arg("sites"), | ~~~~~~~~~~~~~ 160 | arg("masses"), | ~~~~~~~~~~~~~~ 161 | arg("tardy_tree"), | ~~~~~~~~~~~~~~~~~~ 162 | arg("potential_obj"), | ~~~~~~~~~~~~~~~~~~~~~ 163 | arg("near_singular_hinges_angular_tolerance_deg")=5))) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/rigid_body/tardy.h:163:36: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 163 | SCITBX_ASSERT(body->parent < nc); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/rigid_body/tardy.h:163:9: note: in expansion of macro ‘SCITBX_ASSERT’ 163 | SCITBX_ASSERT(body->parent < nc); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h: In instantiation of ‘scitbx::af::tiny::tiny(const OtherElementType*, const OtherElementType*) [with OtherElementType = double; ElementType = double; long unsigned int N = 1]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/rigid_body/joint_lib.h:648:13: required from ‘boost::shared_ptr > scitbx::rigid_body::joint_lib::revolute::new_q(const scitbx::af::const_ref&) const [with FloatType = double]’ 648 | af::tiny(q.begin(), q.end()))); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/rigid_body/joint_lib.h:643:5: required from here 643 | new_q( | ^~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/detail/tiny_helpers.h:148:20: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘scitbx::af::tiny_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 148 | if (last - first != this->size()) throw_range_error(); \ | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:30:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_TINY_CONVENIENCE_CONSTRUCTORS’ 30 | SCITBX_ARRAY_FAMILY_TINY_CONVENIENCE_CONSTRUCTORS(tiny) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h: In instantiation of ‘scitbx::af::tiny::tiny(const OtherElementType*, const OtherElementType*) [with OtherElementType = double; ElementType = double; long unsigned int N = 12]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/rigid_body/joint_lib.h:45:16: required from ‘scitbx::af::tiny scitbx::rigid_body::joint_lib::rbda_eq_4_13(const scitbx::af::tiny&) [with FloatType = double]’ 45 | return af::tiny(coeffs, coeffs+4*3) * ft(0.5); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/rigid_body/joint_lib.h:279:21: required from ‘boost::shared_ptr > scitbx::rigid_body::joint_lib::six_dof::time_step_position(const scitbx::af::const_ref&, const ft&) const [with FloatType = double; ft = double]’ 279 | rbda_eq_4_13(unit_quaternion), w_body_frame); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/rigid_body/joint_lib.h:271:5: required from here 271 | time_step_position( | ^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/detail/tiny_helpers.h:148:20: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘scitbx::af::tiny_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 148 | if (last - first != this->size()) throw_range_error(); \ | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:30:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_TINY_CONVENIENCE_CONSTRUCTORS’ 30 | SCITBX_ARRAY_FAMILY_TINY_CONVENIENCE_CONSTRUCTORS(tiny) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h: In instantiation of ‘scitbx::af::tiny::tiny(const OtherElementType*, const OtherElementType*) [with OtherElementType = double; ElementType = double; long unsigned int N = 16]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/rigid_body/joint_lib.h:79:16: required from ‘scitbx::af::tiny scitbx::rigid_body::joint_lib::d_unit_quaternion_d_qe_matrix(const scitbx::af::tiny&) [with FloatType = double]’ 79 | return af::tiny(coeffs, coeffs+4*4) / n3; | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/rigid_body/joint_lib.h:317:58: required from ‘scitbx::af::small scitbx::rigid_body::joint_lib::six_dof::tau_as_d_e_pot_d_q(const scitbx::af::small&) const [with FloatType = double]’ 317 | af::tiny d = d_unit_quaternion_d_qe_matrix(qe); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/rigid_body/joint_lib.h:313:5: required from here 313 | tau_as_d_e_pot_d_q( | ^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/detail/tiny_helpers.h:148:20: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘scitbx::af::tiny_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 148 | if (last - first != this->size()) throw_range_error(); \ | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:30:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_TINY_CONVENIENCE_CONSTRUCTORS’ 30 | SCITBX_ARRAY_FAMILY_TINY_CONVENIENCE_CONSTRUCTORS(tiny) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small_plain.h: In instantiation of ‘scitbx::af::small_plain::small_plain(const ElementType*, const ElementType*) [with ElementType = double; long unsigned int N = 7]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small.h:44:33: required from ‘scitbx::af::small::small(const ElementType*, const ElementType*) [with ElementType = double; long unsigned int N = 7]’ 44 | : base_class(first, last) | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/rigid_body/joint_lib.h:324:24: required from ‘scitbx::af::small scitbx::rigid_body::joint_lib::six_dof::tau_as_d_e_pot_d_q(const scitbx::af::small&) const [with FloatType = double]’ 324 | af::small result(cn.begin(), cn.end()); | ^~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/rigid_body/joint_lib.h:313:5: required from here 313 | tau_as_d_e_pot_d_q( | ^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small_plain.h:59:15: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘long int’ [-Wsign-compare] 59 | if (N < last - first) throw_range_error(); | ~~^~~~~~~~~~~~~~ g++ -o lib/scitbx_r3_utils_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_r3_utils_ext.so.0 scitbx/r3_utils_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/scitbx_r3_utils_ext.so.0.0.1' 'lib/scitbx_r3_utils_ext.so.0'->'lib/scitbx_r3_utils_ext.so.0.0.1' 'lib/scitbx_r3_utils_ext.so'->'lib/scitbx_r3_utils_ext.so.0.0.1' g++ -o scitbx/sparse/boost_python/approx_equal.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/sparse/boost_python/approx_equal.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ Create symlinks for: 'lib/scitbx_math_ext.so.0.0.1' 'lib/scitbx_math_ext.so.0'->'lib/scitbx_math_ext.so.0.0.1' 'lib/scitbx_math_ext.so'->'lib/scitbx_math_ext.so.0.0.1' g++ -o scitbx/sparse/boost_python/random.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/sparse/boost_python/random.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa_plain.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa_matrix.h:4: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h: In constructor ‘scitbx::af::shared_plain::shared_plain(const size_type&) [with ElementType = scitbx::vec3]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:132:34: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/15/memory:71, from /usr/include/boost/config/no_tr1/memory.hpp:21, from /usr/include/boost/get_pointer.hpp:14, from /usr/include/boost/python/object/pointer_holder.hpp:11, from /usr/include/boost/python/to_python_indirect.hpp:10, from /usr/include/boost/python/converter/arg_to_python.hpp:10, from /usr/include/boost/python/call.hpp:15, from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object.hpp:9, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/array_as_list.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/rigid_body/ext.cpp:3: /usr/include/c++/15/bits/stl_uninitialized.h:526:5: note: by argument 3 of type ‘const scitbx::vec3&’ to ‘_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = scitbx::vec3*; _Size = long unsigned int; _Tp = scitbx::vec3]’ declared here 526 | uninitialized_fill_n(_ForwardIterator __first, _Size __n, const _Tp& __x) | ^~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:132:48: note: ‘’ declared here 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h: In constructor ‘scitbx::af::shared_plain::shared_plain(const size_type&) [with ElementType = scitbx::af::tiny]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:132:34: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_uninitialized.h:526:5: note: by argument 3 of type ‘const scitbx::af::tiny&’ to ‘_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = scitbx::af::tiny*; _Size = long unsigned int; _Tp = scitbx::af::tiny]’ declared here 526 | uninitialized_fill_n(_ForwardIterator __first, _Size __n, const _Tp& __x) | ^~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:132:48: note: ‘’ declared here 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); | ^~~~~~~~~~~~~ g++ -o scitbx/sparse/boost_python/lu_factorization.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/sparse/boost_python/lu_factorization.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:307: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/detail/push_back_etc.h: In member function ‘void scitbx::af::shared_plain::resize(const size_type&) [with ElementType = scitbx::af::tiny]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/detail/push_back_etc.h:175:15: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] 175 | resize(new_size, ElementType()); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/detail/push_back_etc.h:165:12: note: by argument 3 of type ‘const scitbx::af::tiny&’ to ‘void scitbx::af::shared_plain::resize(const size_type&, const ElementType&) [with ElementType = scitbx::af::tiny]’ declared here 165 | void resize(size_type const& new_size, ElementType const& x) { | ^~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/detail/push_back_etc.h:175:26: note: ‘’ declared here 175 | resize(new_size, ElementType()); | ^~~~~~~~~~~~~ g++ -o lib/scitbx_random_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_random_ext.so.0 scitbx/random/boost_python/random_ext.o scitbx/random/boost_python/basic_distributions.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/scitbx_random_ext.so.0.0.1' 'lib/scitbx_random_ext.so.0'->'lib/scitbx_random_ext.so.0.0.1' 'lib/scitbx_random_ext.so'->'lib/scitbx_random_ext.so.0.0.1' g++ -o scitbx/sparse/boost_python/sparse_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/sparse/boost_python/sparse_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/stl/map_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/stl/map_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/stl/set_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/stl/set_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/stl/vector_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/stl/vector_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/suffixtree/boost_python/suffixtree_shared_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/suffixtree/boost_python/suffixtree_shared_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/scitbx_rigid_body_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_rigid_body_ext.so.0 scitbx/rigid_body/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_python314 -lm In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/stl/set_ext.cpp:1: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/stl/set_wrapper.h: In static member function ‘static void scitbx::stl::boost_python::set_wrapper::wrap(const std::string&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/stl/set_wrapper.h:52:28: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 52 | bp::class_ >(python_name.c_str()) | ^~~~~~~~ In file included from /usr/include/c++/15/memory:80, from /usr/include/boost/config/no_tr1/memory.hpp:21, from /usr/include/boost/get_pointer.hpp:14, from /usr/include/boost/python/object/pointer_holder.hpp:11, from /usr/include/boost/python/to_python_indirect.hpp:10, from /usr/include/boost/python/converter/arg_to_python.hpp:10, from /usr/include/boost/python/call.hpp:15, from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object/class.hpp:9, from /usr/include/boost/python/class.hpp:13, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/stl/set_wrapper.h:4: /usr/include/c++/15/bits/unique_ptr.h:58:28: note: declared here 58 | template class auto_ptr; | ^~~~~~~~ Create symlinks for: 'lib/scitbx_rigid_body_ext.so.0.0.1' 'lib/scitbx_rigid_body_ext.so.0'->'lib/scitbx_rigid_body_ext.so.0.0.1' 'lib/scitbx_rigid_body_ext.so'->'lib/scitbx_rigid_body_ext.so.0.0.1' g++ -o scitbx/suffixtree/boost_python/suffixtree_single_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/suffixtree/boost_python/suffixtree_single_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /usr/include/boost/assert.hpp:64, from /usr/include/boost/smart_ptr/shared_ptr.hpp:23, from /usr/include/boost/shared_ptr.hpp:17, from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, from /usr/include/boost/python/converter/arg_to_python.hpp:15: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = std::set, std::allocator >; ConversionPolicy = scitbx::boost_python::container_conversions::set_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = std::set, std::allocator >; ConversionPolicy = scitbx::boost_python::container_conversions::set_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/stl/set_wrapper.h:68:52: required from ‘static void scitbx::stl::boost_python::set_wrapper::wrap(const std::string&) [with ElementType = unsigned int; std::string = std::__cxx11::basic_string]’ 68 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 69 | w_t, scitbx::boost_python::container_conversions::set_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/stl/set_ext.cpp:9:32: required from here 9 | set_wrapper::wrap("unsigned"); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = std::set, std::less >, std::allocator > >; ConversionPolicy = scitbx::boost_python::container_conversions::set_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = std::set, std::less >, std::allocator > >; ConversionPolicy = scitbx::boost_python::container_conversions::set_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/stl/set_wrapper.h:68:52: required from ‘static void scitbx::stl::boost_python::set_wrapper::wrap(const std::string&) [with ElementType = std::__cxx11::basic_string; std::string = std::__cxx11::basic_string]’ 68 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 69 | w_t, scitbx::boost_python::container_conversions::set_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/stl/set_ext.cpp:10:35: required from here 10 | set_wrapper::wrap("stl_string"); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ g++ -o lib/scitbx_sparse_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_sparse_ext.so.0 scitbx/sparse/boost_python/vector.o scitbx/sparse/boost_python/matrix.o scitbx/sparse/boost_python/approx_equal.o scitbx/sparse/boost_python/random.o scitbx/sparse/boost_python/lu_factorization.o scitbx/sparse/boost_python/sparse_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_python314 -lm In file included from /usr/include/boost/assert.hpp:64, from /usr/include/boost/smart_ptr/shared_ptr.hpp:23, from /usr/include/boost/shared_ptr.hpp:17, from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, from /usr/include/boost/python/converter/arg_to_python.hpp:15, from /usr/include/boost/python/call.hpp:15, from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object/class.hpp:9, from /usr/include/boost/python/class.hpp:13, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/stl/vector_wrapper.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/stl/vector_ext.cpp:2: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = std::vector >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = std::vector >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/stl/vector_wrapper.h:121:52: required from ‘static void scitbx::stl::boost_python::vector_wrapper::wrap(const std::string&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ 121 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 122 | w_t, | ~~~~ 123 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 124 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/stl/vector_ext.cpp:10:35: required from here 10 | vector_wrapper::wrap("unsigned"); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = std::vector >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = std::vector >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/stl/vector_wrapper.h:121:52: required from ‘static void scitbx::stl::boost_python::vector_wrapper::wrap(const std::string&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ 121 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 122 | w_t, | ~~~~ 123 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 124 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/stl/vector_ext.cpp:11:33: required from here 11 | vector_wrapper::wrap("double"); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = std::vector, std::allocator > >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = std::vector, std::allocator > >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/stl/vector_wrapper.h:121:52: required from ‘static void scitbx::stl::boost_python::vector_wrapper::wrap(const std::string&) [with ElementType = std::set; GetitemReturnValuePolicy = boost::python::return_internal_reference<>; std::string = std::__cxx11::basic_string]’ 121 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 122 | w_t, | ~~~~ 123 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 124 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/stl/vector_ext.cpp:14:50: required from here 14 | vector_wrapper, rir>::wrap("set_unsigned"); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ Create symlinks for: 'lib/scitbx_sparse_ext.so.0.0.1' 'lib/scitbx_sparse_ext.so.0'->'lib/scitbx_sparse_ext.so.0.0.1' 'lib/scitbx_sparse_ext.so'->'lib/scitbx_sparse_ext.so.0.0.1' g++ -o scitbx/suffixtree/boost_python/object_extensions.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/suffixtree/boost_python/object_extensions.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/scitbx_suffixtree_shared_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_suffixtree_shared_ext.so.0 scitbx/suffixtree/boost_python/suffixtree_shared_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/scitbx_suffixtree_shared_ext.so.0.0.1' 'lib/scitbx_suffixtree_shared_ext.so.0'->'lib/scitbx_suffixtree_shared_ext.so.0.0.1' 'lib/scitbx_suffixtree_shared_ext.so'->'lib/scitbx_suffixtree_shared_ext.so.0.0.1' g++ -o scitbx/wigner/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/wigner/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/ab_initio/ab_initio_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/ab_initio/ab_initio_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/scitbx_stl_set_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_stl_set_ext.so.0 scitbx/stl/set_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/scitbx_stl_set_ext.so.0.0.1' 'lib/scitbx_stl_set_ext.so.0'->'lib/scitbx_stl_set_ext.so.0.0.1' 'lib/scitbx_stl_set_ext.so'->'lib/scitbx_stl_set_ext.so.0.0.1' g++ -o smtbx/array_family/af_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/array_family/af_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/scitbx_wigner_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_wigner_ext.so.0 scitbx/wigner/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/scitbx_wigner_ext.so.0.0.1' 'lib/scitbx_wigner_ext.so.0'->'lib/scitbx_wigner_ext.so.0.0.1' 'lib/scitbx_wigner_ext.so'->'lib/scitbx_wigner_ext.so.0.0.1' g++ -o smtbx/refinement/constraints/boost_python/affine.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints/boost_python/affine.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/smtbx_array_family_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=smtbx_array_family_ext.so.0 smtbx/array_family/af_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/smtbx_array_family_ext.so.0.0.1' 'lib/smtbx_array_family_ext.so.0'->'lib/smtbx_array_family_ext.so.0.0.1' 'lib/smtbx_array_family_ext.so'->'lib/smtbx_array_family_ext.so.0.0.1' g++ -o smtbx/refinement/constraints/boost_python/constraints_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints/boost_python/constraints_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/smtbx_ab_initio_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=smtbx_ab_initio_ext.so.0 smtbx/ab_initio/ab_initio_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/smtbx_ab_initio_ext.so.0.0.1' 'lib/smtbx_ab_initio_ext.so.0'->'lib/smtbx_ab_initio_ext.so.0.0.1' 'lib/smtbx_ab_initio_ext.so'->'lib/smtbx_ab_initio_ext.so.0.0.1' g++ -o smtbx/refinement/constraints/boost_python/direction.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints/boost_python/direction.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/constraints/boost_python/geometrical_hydrogens.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints/boost_python/geometrical_hydrogens.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/scitbx_stl_vector_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_stl_vector_ext.so.0 scitbx/stl/vector_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/scitbx_stl_vector_ext.so.0.0.1' 'lib/scitbx_stl_vector_ext.so.0'->'lib/scitbx_stl_vector_ext.so.0.0.1' 'lib/scitbx_stl_vector_ext.so'->'lib/scitbx_stl_vector_ext.so.0.0.1' g++ -o smtbx/refinement/constraints/boost_python/independent_scalar_parameters.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints/boost_python/independent_scalar_parameters.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/constraints/boost_python/occupancy.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints/boost_python/occupancy.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/scitbx_suffixtree_single_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_suffixtree_single_ext.so.0 scitbx/suffixtree/boost_python/suffixtree_single_ext.o scitbx/suffixtree/boost_python/object_extensions.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/scitbx_suffixtree_single_ext.so.0.0.1' 'lib/scitbx_suffixtree_single_ext.so.0'->'lib/scitbx_suffixtree_single_ext.so.0.0.1' 'lib/scitbx_suffixtree_single_ext.so'->'lib/scitbx_suffixtree_single_ext.so.0.0.1' g++ -o smtbx/refinement/constraints/boost_python/reparametrisation.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints/boost_python/reparametrisation.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/scitbx_stl_map_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_stl_map_ext.so.0 scitbx/stl/map_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/scitbx_stl_map_ext.so.0.0.1' 'lib/scitbx_stl_map_ext.so.0'->'lib/scitbx_stl_map_ext.so.0.0.1' 'lib/scitbx_stl_map_ext.so'->'lib/scitbx_stl_map_ext.so.0.0.1' g++ -o smtbx/refinement/constraints/boost_python/rigid.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints/boost_python/rigid.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/constraints/boost_python/same_group.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints/boost_python/same_group.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/constraints/boost_python/scaled_adp.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints/boost_python/scaled_adp.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/constraints/boost_python/scatterer_parameters.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints/boost_python/scatterer_parameters.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/constraints/boost_python/shared.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints/boost_python/shared.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/constraints/boost_python/special_position.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints/boost_python/special_position.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/constraints/boost_python/symmetry_equivalent.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints/boost_python/symmetry_equivalent.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/constraints/boost_python/u_eq_dependent_u_iso.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints/boost_python/u_eq_dependent_u_iso.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/constraints/boost_python/u_iso_dependent_u_iso.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints/boost_python/u_iso_dependent_u_iso.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/boost_python/least_squares_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/boost_python/least_squares_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/boost_python/weighting_schemes.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/boost_python/weighting_schemes.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/boost_python/least_squares.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/boost_python/least_squares.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/restraints/boost_python/origin_fixing.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/restraints/boost_python/origin_fixing.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/restraints/boost_python/restraints_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/restraints/boost_python/restraints_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/stl/map_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/stl/map_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/smtbx_refinement_constraints_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=smtbx_refinement_constraints_ext.so.0 smtbx/refinement/constraints/boost_python/affine.o smtbx/refinement/constraints/boost_python/constraints_ext.o smtbx/refinement/constraints/boost_python/direction.o smtbx/refinement/constraints/boost_python/geometrical_hydrogens.o smtbx/refinement/constraints/boost_python/independent_scalar_parameters.o smtbx/refinement/constraints/boost_python/occupancy.o smtbx/refinement/constraints/boost_python/reparametrisation.o smtbx/refinement/constraints/boost_python/rigid.o smtbx/refinement/constraints/boost_python/same_group.o smtbx/refinement/constraints/boost_python/scaled_adp.o smtbx/refinement/constraints/boost_python/scatterer_parameters.o smtbx/refinement/constraints/boost_python/shared.o smtbx/refinement/constraints/boost_python/special_position.o smtbx/refinement/constraints/boost_python/symmetry_equivalent.o smtbx/refinement/constraints/boost_python/u_eq_dependent_u_iso.o smtbx/refinement/constraints/boost_python/u_iso_dependent_u_iso.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lsmtbx_refinement_constraints -lscitbx_boost_python -lcctbx -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/smtbx_refinement_constraints_ext.so.0.0.1' 'lib/smtbx_refinement_constraints_ext.so.0'->'lib/smtbx_refinement_constraints_ext.so.0.0.1' 'lib/smtbx_refinement_constraints_ext.so'->'lib/smtbx_refinement_constraints_ext.so.0.0.1' g++ -o smtbx/structure_factors/direct/boost_python/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/structure_factors/direct/boost_python/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/structure_factors/direct/boost_python/standard_xray.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/structure_factors/direct/boost_python/standard_xray.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o spotfinder/array_family/flex_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -I/usr/include/python3.14 -Ispotfinder/array_family/src -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/array_family/src -Ispotfinder/array_family/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/array_family/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/array_family/flex_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o spotfinder/array_family/flex_distl_spot.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -I/usr/include/python3.14 -Ispotfinder/array_family/src -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/array_family/src -Ispotfinder/array_family/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/array_family/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/array_family/flex_distl_spot.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o spotfinder/core_toolbox/boost_python/distltbx_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -I/usr/include/python3.14 -Ispotfinder/core_toolbox/boost_python/src -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/core_toolbox/boost_python/src -Ispotfinder/core_toolbox/boost_python/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/core_toolbox/boost_python/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/core_toolbox/boost_python/distltbx_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/smtbx_stl_map_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=smtbx_stl_map_ext.so.0 smtbx/stl/map_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/smtbx_stl_map_ext.so.0.0.1' 'lib/smtbx_stl_map_ext.so.0'->'lib/smtbx_stl_map_ext.so.0.0.1' 'lib/smtbx_stl_map_ext.so'->'lib/smtbx_stl_map_ext.so.0.0.1' g++ -o spotfinder/diffraction/geometry.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -I/usr/include/python3.14 -Ispotfinder/core_toolbox/boost_python/src -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/core_toolbox/boost_python/src -Ispotfinder/core_toolbox/boost_python/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/core_toolbox/boost_python/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/diffraction/geometry.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/smtbx_refinement_restraints_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=smtbx_refinement_restraints_ext.so.0 smtbx/refinement/restraints/boost_python/origin_fixing.o smtbx/refinement/restraints/boost_python/restraints_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/smtbx_refinement_restraints_ext.so.0.0.1' 'lib/smtbx_refinement_restraints_ext.so.0'->'lib/smtbx_refinement_restraints_ext.so.0.0.1' 'lib/smtbx_refinement_restraints_ext.so'->'lib/smtbx_refinement_restraints_ext.so.0.0.1' g++ -o spotfinder/dxtbx_toolbox/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -I/usr/include/python3.14 -Ispotfinder/dxtbx_toolbox/src -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/dxtbx_toolbox/src -Ispotfinder/dxtbx_toolbox/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/dxtbx_toolbox/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/dxtbx_toolbox/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o spotfinder/core_toolbox/boost_python/hough_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -I/usr/include/python3.14 -Ispotfinder/core_toolbox/boost_python/src -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/core_toolbox/boost_python/src -Ispotfinder/core_toolbox/boost_python/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/core_toolbox/boost_python/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/core_toolbox/boost_python/hough_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/spotfinder_hough_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=spotfinder_hough_ext.so.0 spotfinder/core_toolbox/boost_python/hough_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lspotfinder -lomptbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/spotfinder_hough_ext.so.0.0.1' 'lib/spotfinder_hough_ext.so.0'->'lib/spotfinder_hough_ext.so.0.0.1' 'lib/spotfinder_hough_ext.so'->'lib/spotfinder_hough_ext.so.0.0.1' g++ -o lib/std_pair_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=std_pair_ext.so.0 boost_adaptbx/std_pair_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread -lboost_python314 -lm -lboost_timer Create symlinks for: 'lib/std_pair_ext.so.0.0.1' 'lib/std_pair_ext.so.0'->'lib/std_pair_ext.so.0.0.1' 'lib/std_pair_ext.so'->'lib/std_pair_ext.so.0.0.1' g++ -o mmtbx/masks/tst_mask.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/masks/tst_mask.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o mmtbx/masks/tst_mask -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread mmtbx/masks/tst_mask.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lmmtbx_masks -liotbx_pdb -lcctbx -lomptbx -lcctbx_sgtbx_asu -lm g++ -o scitbx/array_family/boost_python/regression_test_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.14 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/regression_test_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/smtbx_refinement_least_squares_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=smtbx_refinement_least_squares_ext.so.0 smtbx/refinement/boost_python/least_squares_ext.o smtbx/refinement/boost_python/weighting_schemes.o smtbx/refinement/boost_python/least_squares.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lsmtbx_refinement_constraints -lscitbx_boost_python -lcctbx -lboost_thread -lboost_python314 -lm g++ -o lib/spotfinder_dxtbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=spotfinder_dxtbx_ext.so.0 spotfinder/dxtbx_toolbox/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -ldxtbxspotfinder -lspotfinder -lomptbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm g++ -o lib/spotfinder_distltbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=spotfinder_distltbx_ext.so.0 spotfinder/core_toolbox/boost_python/distltbx_ext.o spotfinder/diffraction/geometry.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lspotfinder -lomptbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/smtbx_refinement_least_squares_ext.so.0.0.1' 'lib/smtbx_refinement_least_squares_ext.so.0'->'lib/smtbx_refinement_least_squares_ext.so.0.0.1' 'lib/smtbx_refinement_least_squares_ext.so'->'lib/smtbx_refinement_least_squares_ext.so.0.0.1' g++ -o scitbx/array_family/tst_accessors.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_accessors.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ Create symlinks for: 'lib/spotfinder_distltbx_ext.so.0.0.1' 'lib/spotfinder_distltbx_ext.so.0'->'lib/spotfinder_distltbx_ext.so.0.0.1' 'lib/spotfinder_distltbx_ext.so'->'lib/spotfinder_distltbx_ext.so.0.0.1' g++ -o scitbx/array_family/tst_af_1.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_1.cpp Create symlinks for: 'lib/spotfinder_dxtbx_ext.so.0.0.1' 'lib/spotfinder_dxtbx_ext.so.0'->'lib/spotfinder_dxtbx_ext.so.0.0.1' 'lib/spotfinder_dxtbx_ext.so'->'lib/spotfinder_dxtbx_ext.so.0.0.1' cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/array_family/tst_af_2.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_2.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /usr/include/boost/smart_ptr/detail/deprecated_macros.hpp:8, from /usr/include/boost/smart_ptr/scoped_array.hpp:14, from /usr/include/boost/scoped_array.hpp:13, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref.h:10, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include/scitbx/array_family/tiny_plain_apply.h:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_1.cpp:1: /usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_1.cpp: In instantiation of ‘static void {anonymous}::array_exercise::run_2() [with ArrayType = scitbx::af::small_plain]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_1.cpp:29:12: required from ‘static void {anonymous}::array_exercise::run() [with ArrayType = scitbx::af::small_plain]’ 29 | run_2(); | ~~~~~^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_1.cpp:619:52: required from here 619 | array_exercise >::run(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_1.cpp:70:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::small_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 70 | for(int i=0;i::run_2() [with ArrayType = scitbx::af::small]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_1.cpp:29:12: required from ‘static void {anonymous}::array_exercise::run() [with ArrayType = scitbx::af::small]’ 29 | run_2(); | ~~~~~^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_1.cpp:621:46: required from here 621 | array_exercise >::run(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_1.cpp:70:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::small_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 70 | for(int i=0;i::run_2() [with ArrayType = scitbx::af::shared_plain]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_1.cpp:29:12: required from ‘static void {anonymous}::array_exercise::run() [with ArrayType = scitbx::af::shared_plain]’ 29 | run_2(); | ~~~~~^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_1.cpp:624:48: required from here 624 | array_exercise >::run(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_1.cpp:70:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 70 | for(int i=0;i::run_2() [with ArrayType = scitbx::af::shared]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_1.cpp:29:12: required from ‘static void {anonymous}::array_exercise::run() [with ArrayType = scitbx::af::shared]’ 29 | run_2(); | ~~~~~^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_1.cpp:629:42: required from here 629 | array_exercise >::run(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_1.cpp:70:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 70 | for(int i=0;i::run_1() [with ArrayType = scitbx::af::versa_plain; AltArrayType = scitbx::af::versa_plain >]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_1.cpp:415:12: required from ‘static void {anonymous}::versa_exercise::run() [with ArrayType = scitbx::af::versa_plain; AltArrayType = scitbx::af::versa_plain >]’ 415 | run_1(); | ~~~~~^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_1.cpp:635:64: required from here 634 | versa_exercise, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 635 | af::versa_plain > >::run(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_1.cpp:437:52: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘scitbx::af::versa_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 437 | check_true(__LINE__, a2.end() - a2.begin() == a2.size()); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_1.cpp:438:52: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘scitbx::af::versa_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 438 | check_true(__LINE__, a3.end() - a3.begin() == a3.size()); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_1.cpp:439:52: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘scitbx::af::versa_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 439 | check_true(__LINE__, a4.end() - a4.begin() == a4.size()); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_1.cpp:440:52: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘scitbx::af::versa_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 440 | check_true(__LINE__, a5.end() - a5.begin() == a5.size()); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_1.cpp:441:52: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘scitbx::af::versa_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 441 | check_true(__LINE__, a6.end() - a6.begin() == a6.size()); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_1.cpp: In instantiation of ‘static void {anonymous}::versa_exercise::run_1() [with ArrayType = scitbx::af::versa; AltArrayType = scitbx::af::versa >]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_1.cpp:415:12: required from ‘static void {anonymous}::versa_exercise::run() [with ArrayType = scitbx::af::versa; AltArrayType = scitbx::af::versa >]’ 415 | run_1(); | ~~~~~^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_1.cpp:637:58: required from here 636 | versa_exercise, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 637 | af::versa > >::run(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_1.cpp:437:52: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘scitbx::af::versa_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 437 | check_true(__LINE__, a2.end() - a2.begin() == a2.size()); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_1.cpp:438:52: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘scitbx::af::versa_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 438 | check_true(__LINE__, a3.end() - a3.begin() == a3.size()); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_1.cpp:439:52: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘scitbx::af::versa_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 439 | check_true(__LINE__, a4.end() - a4.begin() == a4.size()); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_1.cpp:440:52: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘scitbx::af::versa_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 440 | check_true(__LINE__, a5.end() - a5.begin() == a5.size()); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_1.cpp:441:52: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘scitbx::af::versa_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 441 | check_true(__LINE__, a6.end() - a6.begin() == a6.size()); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include/scitbx/array_family/small_plain_apply.h:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_1.cpp:3: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small_plain.h: In instantiation of ‘scitbx::af::small_plain::small_plain(const ElementType*, const ElementType*) [with ElementType = int; long unsigned int N = 128]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_1.cpp:41:17: required from ‘static void {anonymous}::array_exercise::run_1() [with ArrayType = scitbx::af::small_plain]’ 41 | ArrayType a5(a4.begin(), a4.begin()); | ^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_1.cpp:28:12: required from ‘static void {anonymous}::array_exercise::run() [with ArrayType = scitbx::af::small_plain]’ 28 | run_1(); | ~~~~~^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_1.cpp:619:52: required from here 619 | array_exercise >::run(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small_plain.h:59:15: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘long int’ [-Wsign-compare] 59 | if (N < last - first) throw_range_error(); | ~~^~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_accessors.cpp:15: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_helpers.cpp: In instantiation of ‘void {anonymous}::verify(long int, const VectorType1&, const VectorType2&) [with VectorType1 = scitbx::af::small; VectorType2 = scitbx::af::c_grid<1>]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_accessors.cpp:127:11: required from here 127 | verify(__LINE__, a.as_flex_grid().all(), a); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_helpers.cpp:17:18: warning: comparison of integer expressions of different signedness: ‘const long int’ and ‘const long unsigned int’ [-Wsign-compare] 17 | if (v[i] != a[i]) { | ~~~~~^~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_helpers.cpp: In instantiation of ‘void {anonymous}::verify(long int, const VectorType1&, const VectorType2&) [with VectorType1 = scitbx::af::small; VectorType2 = scitbx::af::c_grid<4>]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_accessors.cpp:145:11: required from here 145 | verify(__LINE__, a.as_flex_grid().all(), a); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_helpers.cpp:17:18: warning: comparison of integer expressions of different signedness: ‘const long int’ and ‘const long unsigned int’ [-Wsign-compare] 17 | if (v[i] != a[i]) { | ~~~~~^~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_helpers.cpp: In instantiation of ‘void {anonymous}::verify(long int, const VectorType1&, const VectorType2&) [with VectorType1 = scitbx::af::small; VectorType2 = scitbx::af::c_grid<2>]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_accessors.cpp:172:11: required from here 172 | verify(__LINE__, a.as_flex_grid().all(), a); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_helpers.cpp:17:18: warning: comparison of integer expressions of different signedness: ‘const long int’ and ‘const long unsigned int’ [-Wsign-compare] 17 | if (v[i] != a[i]) { | ~~~~~^~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_helpers.cpp: In instantiation of ‘void {anonymous}::verify(long int, const VectorType1&, const VectorType2&) [with VectorType1 = scitbx::af::small; VectorType2 = scitbx::af::c_grid<3>]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_accessors.cpp:202:11: required from here 202 | verify(__LINE__, a.as_flex_grid().all(), a); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_helpers.cpp:17:18: warning: comparison of integer expressions of different signedness: ‘const long int’ and ‘const long unsigned int’ [-Wsign-compare] 17 | if (v[i] != a[i]) { | ~~~~~^~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_helpers.cpp: In instantiation of ‘void {anonymous}::verify(long int, const VectorType1&, const VectorType2&) [with VectorType1 = scitbx::af::small; VectorType2 = scitbx::af::tiny]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_accessors.cpp:248:11: required from here 248 | verify(__LINE__, a.as_flex_grid().all(), a.all()); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_helpers.cpp:17:18: warning: comparison of integer expressions of different signedness: ‘const long int’ and ‘const long unsigned int’ [-Wsign-compare] 17 | if (v[i] != a[i]) { | ~~~~~^~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_helpers.cpp: In instantiation of ‘void {anonymous}::verify(long int, const VectorType1&, const VectorType2&) [with VectorType1 = scitbx::af::small; VectorType2 = scitbx::af::tiny]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_accessors.cpp:280:11: required from here 280 | verify(__LINE__, a.as_flex_grid().all(), a.all()); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_helpers.cpp:17:18: warning: comparison of integer expressions of different signedness: ‘const long int’ and ‘const long unsigned int’ [-Wsign-compare] 17 | if (v[i] != a[i]) { | ~~~~~^~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_helpers.cpp: In instantiation of ‘void {anonymous}::verify(long int, const VectorType1&, const VectorType2&) [with VectorType1 = scitbx::af::small; VectorType2 = scitbx::af::tiny]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_accessors.cpp:326:11: required from here 326 | verify(__LINE__, a.as_flex_grid().all(), a.all()); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_helpers.cpp:17:18: warning: comparison of integer expressions of different signedness: ‘const long int’ and ‘const long unsigned int’ [-Wsign-compare] 17 | if (v[i] != a[i]) { | ~~~~~^~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_helpers.cpp: In instantiation of ‘void {anonymous}::verify(long int, const VectorType1&, const VectorType2&) [with VectorType1 = scitbx::af::small; VectorType2 = scitbx::af::tiny]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_accessors.cpp:371:11: required from here 371 | verify(__LINE__, a.as_flex_grid().all(), a.all()); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_helpers.cpp:17:18: warning: comparison of integer expressions of different signedness: ‘const long int’ and ‘const long unsigned int’ [-Wsign-compare] 17 | if (v[i] != a[i]) { | ~~~~~^~~~~ In file included from /usr/include/boost/assert.hpp:64, from /usr/include/boost/smart_ptr/shared_ptr.hpp:23, from /usr/include/boost/shared_ptr.hpp:17, from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, from /usr/include/boost/python/converter/arg_to_python.hpp:15, from /usr/include/boost/python/call.hpp:15, from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object.hpp:9, from /usr/include/boost/python/list.hpp:10, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/regression_test_ext.cpp:7: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = std::vector; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = std::vector; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/regression_test_ext.cpp:156:78: required from here 156 | scitbx::boost_python::container_conversions::variable_capacity_policy>(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = std::__cxx11::list; ConversionPolicy = scitbx::boost_python::container_conversions::linked_list_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = std::__cxx11::list; ConversionPolicy = scitbx::boost_python::container_conversions::linked_list_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/regression_test_ext.cpp:160:72: required from here 160 | scitbx::boost_python::container_conversions::linked_list_policy>(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = boost::array; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = boost::array; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/regression_test_ext.cpp:164:71: required from here 164 | scitbx::boost_python::container_conversions::fixed_size_policy>(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = boost::array; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = boost::array; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/regression_test_ext.cpp:168:71: required from here 168 | scitbx::boost_python::container_conversions::fixed_size_policy>(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/regression_test_ext.cpp:172:75: required from here 172 | scitbx::boost_python::container_conversions::fixed_capacity_policy>(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ g++ -o scitbx/array_family/tst_af_2 -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_af_2.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread g++ -o scitbx/array_family/tst_af_3.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_3.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/smtbx_structure_factors_direct_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=smtbx_structure_factors_direct_ext.so.0 smtbx/structure_factors/direct/boost_python/ext.o smtbx/structure_factors/direct/boost_python/standard_xray.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lboost_thread -lboost_python314 -lm Create symlinks for: 'lib/smtbx_structure_factors_direct_ext.so.0.0.1' 'lib/smtbx_structure_factors_direct_ext.so.0'->'lib/smtbx_structure_factors_direct_ext.so.0.0.1' 'lib/smtbx_structure_factors_direct_ext.so'->'lib/smtbx_structure_factors_direct_ext.so.0.0.1' g++ -o scitbx/array_family/tst_af_4.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_4.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/array_family/tst_accessors -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_accessors.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread g++ -o scitbx/array_family/tst_af_5.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_5.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/array_family/tst_af_1 -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_af_1.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread g++ -o scitbx/array_family/tst_af_3 -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_af_3.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread g++ -o scitbx/array_family/tst_mat3.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_mat3.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/array_family/tst_optional_copy.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_optional_copy.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/array_family/boost_python/regression_test_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=regression_test_ext.so.0 scitbx/array_family/boost_python/regression_test_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_python314 -lm -lboost_numpy314 Create symlinks for: 'scitbx/array_family/boost_python/regression_test_ext.so.0.0.1' 'scitbx/array_family/boost_python/regression_test_ext.so.0'->'scitbx/array_family/boost_python/regression_test_ext.so.0.0.1' 'scitbx/array_family/boost_python/regression_test_ext.so'->'scitbx/array_family/boost_python/regression_test_ext.so.0.0.1' g++ -o scitbx/array_family/tst_rectangular_full_packed.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_rectangular_full_packed.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/array_family/tst_af_5 -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_af_5.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lm g++ -o lib/spotfinder_array_family_flex_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=spotfinder_array_family_flex_ext.so.0 spotfinder/array_family/flex_ext.o spotfinder/array_family/flex_distl_spot.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lspotfinder -lomptbx -lscitbx_boost_python -lboost_thread -lboost_python314 -lm g++ -o scitbx/array_family/tst_ref_matrix_facet.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_ref_matrix_facet.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_rectangular_full_packed.cpp: In function ‘int main()’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_rectangular_full_packed.cpp:52:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 52 | for(int i=0; i'lib/spotfinder_array_family_flex_ext.so.0.0.1' 'lib/spotfinder_array_family_flex_ext.so'->'lib/spotfinder_array_family_flex_ext.so.0.0.1' g++ -o scitbx/array_family/tst_sym_mat3.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_sym_mat3.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/array_family/tst_mat3 -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_mat3.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lm g++ -o scitbx/array_family/tst_rectangular_full_packed -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_rectangular_full_packed.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread g++ -o scitbx/array_family/tst_unsigned_float_arithmetic.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_unsigned_float_arithmetic.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/array_family/tst_vec3.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_vec3.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/array_family/tst_optional_copy -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_optional_copy.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread g++ -o scitbx/error/tst_error.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -Iscitbx/error -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error/tst_error.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/array_family/tst_unsigned_float_arithmetic -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_unsigned_float_arithmetic.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread g++ -o scitbx/array_family/tst_ref_matrix_facet -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_ref_matrix_facet.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread g++ -o scitbx/fftpack/timing/fftpack_timer.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/fftpack/timing/fftpack_timer.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/fftpack/timing/test0.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/fftpack/timing/test0.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/error/tst_error -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/error/tst_error.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread g++ -o scitbx/array_family/tst_vec3 -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_vec3.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lm g++ -o scitbx/lbfgs/sdrive_fem.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable scitbx/lbfgs/sdrive_fem.cpp g++ -o scitbx/lbfgs/tst_lbfgs.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgs/tst_lbfgs.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/fftpack/complex_to_complex.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/fftpack/timing/fftpack_timer.cpp:6: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/fftpack/factorization.h: In constructor ‘scitbx::fftpack::factorization::factorization(std::size_t, bool)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/fftpack/factorization.h:64:32: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::tiny_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 64 | for (i = 0; red_n > 1 && i < opt_factors.size(); i++) { | ~~^~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/fftpack/factorization.h:67:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::tiny_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 67 | for (i = 0; i < opt_factors.size(); i++) { | ~~^~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/fftpack/complex_to_complex.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/fftpack/complex_to_complex_3d.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/fftpack/timing/test0.cpp:3: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/fftpack/factorization.h: In constructor ‘scitbx::fftpack::factorization::factorization(std::size_t, bool)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/fftpack/factorization.h:64:32: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::tiny_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 64 | for (i = 0; red_n > 1 && i < opt_factors.size(); i++) { | ~~^~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/fftpack/factorization.h:67:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::tiny_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 67 | for (i = 0; i < opt_factors.size(); i++) { | ~~^~~~~~~~~~~~~~~~~~~~ g++ -o scitbx/array_family/tst_sym_mat3 -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_sym_mat3.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lm g++ -o scitbx/lbfgsb/dev/driver1.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/dev/driver1.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/io.hpp:8, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/close_chain.hpp:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/common.hpp:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/read.hpp:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/major_types.hpp:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem.hpp:10, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include/scitbx/lbfgs_fem.hpp:1, from scitbx/lbfgs/sdrive_fem.cpp:1: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/utils/simple_streams.hpp: In member function ‘virtual void fem::utils::simple_ostream_to_char_ptr_and_size::put(char)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/utils/simple_streams.hpp:63:13: warning: comparison of integer expressions of different signedness: ‘fem::ssize_t’ {aka ‘long int’} and ‘fem::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 63 | if (i < sz) s[i++] = c; | ~~^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/common.hpp: In member function ‘void fem::common::getarg(int, fem::str_ref) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/common.hpp:40:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 40 | if (pos < 0 || pos >= command_line_args.buffer.size()) { | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/utils/string_to_double_fmt.hpp:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/read.hpp:9: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/utils/string_to_double.hpp: In member function ‘void fem::utils::string_to_double::convert(fem::utils::simple_istream&, unsigned int, int)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/utils/string_to_double.hpp:115:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const unsigned int’ [-Wsign-compare] 115 | if (dexp <= ad_hoc_limits::max_digit_count) { | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/read.hpp: In member function ‘double fem::read_loop::read_fmt_double()’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/read.hpp:653:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 653 | if (iw+1 != ed.size()) { | ~~~~~^~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/variant.hpp:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/major_types.hpp:7: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/utils/equivalence.hpp: In member function ‘void fem::utils::equivalence::array_alignment::infer_diffs0_from_diff_matrix()’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/utils/equivalence.hpp:93:28: warning: comparison of integer expressions of different signedness: ‘const fem::ssize_t’ {aka ‘const long int’} and ‘fem::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 93 | if (c0e[0] == i0) { | ~~~~~~~^~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/major_types.hpp:8: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/write.hpp: In destructor ‘fem::write_loop::~write_loop()’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/write.hpp:704:24: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 704 | while (pos < internal_file_len) { | ~~~~^~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/serialization/base_256.h:2, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/floating_point_epsilon.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/dev/driver1.cpp:1: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h: In instantiation of ‘void scitbx::lbfgsb::raw::mainlb(const int&, const int&, const ref1&, const ref1&, const ref1&, const ref1&, FloatType&, const ref1&, const FloatType&, const FloatType&, const ref2&, const ref2&, const ref2&, const ref2&, const ref2&, const ref2&, const ref2&, const ref2&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, std::string&, const int&, std::string&, const ref1&, const ref1&, const ref1&, bool) [with FloatType = double; std::string = std::__cxx11::basic_string]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:4433:11: required from ‘void scitbx::lbfgsb::raw::setulb(const int&, const int&, const ref1&, const ref1&, const ref1&, const ref1&, FloatType&, const ref1&, const FloatType&, const FloatType&, const ref1&, const ref1&, std::string&, const int&, std::string&, const ref1&, const ref1&, const ref1&, bool) [with FloatType = double; std::string = std::__cxx11::basic_string]’ 4433 | mainlb(n,m,x,l,u,nbd,f,g,factr,pgtol, | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 4434 | wa.get2(lws, n, m), | ~~~~~~~~~~~~~~~~~~~ 4435 | wa.get2(lwy, n, m), | ~~~~~~~~~~~~~~~~~~~ 4436 | wa.get2(lsy, m, m), | ~~~~~~~~~~~~~~~~~~~ 4437 | wa.get2(lss, m, m), | ~~~~~~~~~~~~~~~~~~~ 4438 | wa.get2(lyy, m, m), | ~~~~~~~~~~~~~~~~~~~ 4439 | wa.get2(lwt, m, m), | ~~~~~~~~~~~~~~~~~~~ 4440 | wa.get2(lwn, 2*m, 2*m), | ~~~~~~~~~~~~~~~~~~~~~~~ 4441 | wa.get2(lsnd, 2*m, 2*m), | ~~~~~~~~~~~~~~~~~~~~~~~~ 4442 | wa.get1(lz, n), | ~~~~~~~~~~~~~~~ 4443 | wa.get1(lr, n), | ~~~~~~~~~~~~~~~ 4444 | wa.get1(ld, n), | ~~~~~~~~~~~~~~~ 4445 | wa.get1(lt, n), | ~~~~~~~~~~~~~~~ 4446 | wa.get1(lwa, 8*m), | ~~~~~~~~~~~~~~~~~~ 4447 | wa.get1(lsg, m), | ~~~~~~~~~~~~~~~~ 4448 | wa.get1(lsgo, m), | ~~~~~~~~~~~~~~~~~ 4449 | wa.get1(lyg, m), | ~~~~~~~~~~~~~~~~ 4450 | wa.get1(lygo, m), | ~~~~~~~~~~~~~~~~~ 4451 | iwa.get1(1, n), | ~~~~~~~~~~~~~~~ 4452 | iwa.get1(n+1, n), | ~~~~~~~~~~~~~~~~~ 4453 | iwa.get1(2*n+1, n), | ~~~~~~~~~~~~~~~~~~~ 4454 | task,iprint,csave,lsave, | ~~~~~~~~~~~~~~~~~~~~~~~~ 4455 | ref1(&isave(22), 23), | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 4456 | dsave, | ~~~~~~ 4457 | enable_stp_init); | ~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/dev/driver1.cpp:69:11: required from here 69 | setulb( | ~~~~~~^ 70 | n,m,x,l,u,nbd,f,g,factr,pgtol,wa,iwa,task,iprint, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 71 | csave,lsave,isave,dsave); | ~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3671:28: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] 3671 | SCITBX_ASSERT(x.size() == n); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3671:5: note: in expansion of macro ‘SCITBX_ASSERT’ 3671 | SCITBX_ASSERT(x.size() == n); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3672:28: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] 3672 | SCITBX_ASSERT(l.size() == n); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3672:5: note: in expansion of macro ‘SCITBX_ASSERT’ 3672 | SCITBX_ASSERT(l.size() == n); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3673:28: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] 3673 | SCITBX_ASSERT(u.size() == n); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3673:5: note: in expansion of macro ‘SCITBX_ASSERT’ 3673 | SCITBX_ASSERT(u.size() == n); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3674:30: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] 3674 | SCITBX_ASSERT(nbd.size() == n); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3674:5: note: in expansion of macro ‘SCITBX_ASSERT’ 3674 | SCITBX_ASSERT(nbd.size() == n); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3675:28: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] 3675 | SCITBX_ASSERT(g.size() == n); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3675:5: note: in expansion of macro ‘SCITBX_ASSERT’ 3675 | SCITBX_ASSERT(g.size() == n); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h: In instantiation of ‘void scitbx::lbfgsb::raw::write_ref1(const std::string&, const ref1&, const char*) [with ElementType = double; std::string = std::__cxx11::basic_string]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:974:19: required from ‘void scitbx::lbfgsb::raw::prn3lb(const int&, const ref1&, const FloatType&, const std::string&, const int&, const int&, const int&, const int&, const int&, const int&, const int&, const int&, const FloatType&, const FloatType&, const int&, const std::string&, const int&, const FloatType&, const FloatType&, const int&, const FloatType&, const FloatType&, const FloatType&) [with FloatType = double; std::string = std::__cxx11::basic_string]’ 974 | write_ref1(" X =", x); | ~~~~~~~~~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3786:15: required from ‘void scitbx::lbfgsb::raw::mainlb(const int&, const int&, const ref1&, const ref1&, const ref1&, const ref1&, FloatType&, const ref1&, const FloatType&, const FloatType&, const ref2&, const ref2&, const ref2&, const ref2&, const ref2&, const ref2&, const ref2&, const ref2&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, std::string&, const int&, std::string&, const ref1&, const ref1&, const ref1&, bool) [with FloatType = double; std::string = std::__cxx11::basic_string]’ 3786 | prn3lb(n,x,f,task,iprint,info,itfile, | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 3787 | iter,nfgv,nintol,nskip,nact,sbgnrm, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 3788 | zero,nint,word,iback,stp,xstep,k, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 3789 | cachyt,sbtime,lnscht); | ~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:4433:11: required from ‘void scitbx::lbfgsb::raw::setulb(const int&, const int&, const ref1&, const ref1&, const ref1&, const ref1&, FloatType&, const ref1&, const FloatType&, const FloatType&, const ref1&, const ref1&, std::string&, const int&, std::string&, const ref1&, const ref1&, const ref1&, bool) [with FloatType = double; std::string = std::__cxx11::basic_string]’ 4433 | mainlb(n,m,x,l,u,nbd,f,g,factr,pgtol, | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 4434 | wa.get2(lws, n, m), | ~~~~~~~~~~~~~~~~~~~ 4435 | wa.get2(lwy, n, m), | ~~~~~~~~~~~~~~~~~~~ 4436 | wa.get2(lsy, m, m), | ~~~~~~~~~~~~~~~~~~~ 4437 | wa.get2(lss, m, m), | ~~~~~~~~~~~~~~~~~~~ 4438 | wa.get2(lyy, m, m), | ~~~~~~~~~~~~~~~~~~~ 4439 | wa.get2(lwt, m, m), | ~~~~~~~~~~~~~~~~~~~ 4440 | wa.get2(lwn, 2*m, 2*m), | ~~~~~~~~~~~~~~~~~~~~~~~ 4441 | wa.get2(lsnd, 2*m, 2*m), | ~~~~~~~~~~~~~~~~~~~~~~~~ 4442 | wa.get1(lz, n), | ~~~~~~~~~~~~~~~ 4443 | wa.get1(lr, n), | ~~~~~~~~~~~~~~~ 4444 | wa.get1(ld, n), | ~~~~~~~~~~~~~~~ 4445 | wa.get1(lt, n), | ~~~~~~~~~~~~~~~ 4446 | wa.get1(lwa, 8*m), | ~~~~~~~~~~~~~~~~~~ 4447 | wa.get1(lsg, m), | ~~~~~~~~~~~~~~~~ 4448 | wa.get1(lsgo, m), | ~~~~~~~~~~~~~~~~~ 4449 | wa.get1(lyg, m), | ~~~~~~~~~~~~~~~~ 4450 | wa.get1(lygo, m), | ~~~~~~~~~~~~~~~~~ 4451 | iwa.get1(1, n), | ~~~~~~~~~~~~~~~ 4452 | iwa.get1(n+1, n), | ~~~~~~~~~~~~~~~~~ 4453 | iwa.get1(2*n+1, n), | ~~~~~~~~~~~~~~~~~~~ 4454 | task,iprint,csave,lsave, | ~~~~~~~~~~~~~~~~~~~~~~~~ 4455 | ref1(&isave(22), 23), | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 4456 | dsave, | ~~~~~~ 4457 | enable_stp_init); | ~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/dev/driver1.cpp:69:11: required from here 69 | setulb( | ~~~~~~^ 70 | n,m,x,l,u,nbd,f,g,factr,pgtol,wa,iwa,task,iprint, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 71 | csave,lsave,isave,dsave); | ~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:184:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 184 | for(int i=1;i<=a.size();i++) { | ~^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:188:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 188 | for(int j=0;j&, const char*) [with ElementType = double; std::string = std::__cxx11::basic_string]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/dev/driver3.cpp:82:19: required from here 82 | write_ref1(" ", wa.get1(j+1,n)); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:184:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 184 | for(int i=1;i<=a.size();i++) { | ~^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:188:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 188 | for(int j=0;j&, const ref1&, const ref1&, const ref1&, FloatType&, const ref1&, const FloatType&, const FloatType&, const ref2&, const ref2&, const ref2&, const ref2&, const ref2&, const ref2&, const ref2&, const ref2&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, std::string&, const int&, std::string&, const ref1&, const ref1&, const ref1&, bool) [with FloatType = double; std::string = std::__cxx11::basic_string]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:4433:11: required from ‘void scitbx::lbfgsb::raw::setulb(const int&, const int&, const ref1&, const ref1&, const ref1&, const ref1&, FloatType&, const ref1&, const FloatType&, const FloatType&, const ref1&, const ref1&, std::string&, const int&, std::string&, const ref1&, const ref1&, const ref1&, bool) [with FloatType = double; std::string = std::__cxx11::basic_string]’ 4433 | mainlb(n,m,x,l,u,nbd,f,g,factr,pgtol, | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 4434 | wa.get2(lws, n, m), | ~~~~~~~~~~~~~~~~~~~ 4435 | wa.get2(lwy, n, m), | ~~~~~~~~~~~~~~~~~~~ 4436 | wa.get2(lsy, m, m), | ~~~~~~~~~~~~~~~~~~~ 4437 | wa.get2(lss, m, m), | ~~~~~~~~~~~~~~~~~~~ 4438 | wa.get2(lyy, m, m), | ~~~~~~~~~~~~~~~~~~~ 4439 | wa.get2(lwt, m, m), | ~~~~~~~~~~~~~~~~~~~ 4440 | wa.get2(lwn, 2*m, 2*m), | ~~~~~~~~~~~~~~~~~~~~~~~ 4441 | wa.get2(lsnd, 2*m, 2*m), | ~~~~~~~~~~~~~~~~~~~~~~~~ 4442 | wa.get1(lz, n), | ~~~~~~~~~~~~~~~ 4443 | wa.get1(lr, n), | ~~~~~~~~~~~~~~~ 4444 | wa.get1(ld, n), | ~~~~~~~~~~~~~~~ 4445 | wa.get1(lt, n), | ~~~~~~~~~~~~~~~ 4446 | wa.get1(lwa, 8*m), | ~~~~~~~~~~~~~~~~~~ 4447 | wa.get1(lsg, m), | ~~~~~~~~~~~~~~~~ 4448 | wa.get1(lsgo, m), | ~~~~~~~~~~~~~~~~~ 4449 | wa.get1(lyg, m), | ~~~~~~~~~~~~~~~~ 4450 | wa.get1(lygo, m), | ~~~~~~~~~~~~~~~~~ 4451 | iwa.get1(1, n), | ~~~~~~~~~~~~~~~ 4452 | iwa.get1(n+1, n), | ~~~~~~~~~~~~~~~~~ 4453 | iwa.get1(2*n+1, n), | ~~~~~~~~~~~~~~~~~~~ 4454 | task,iprint,csave,lsave, | ~~~~~~~~~~~~~~~~~~~~~~~~ 4455 | ref1(&isave(22), 23), | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 4456 | dsave, | ~~~~~~ 4457 | enable_stp_init); | ~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/dev/driver3.cpp:72:11: required from here 72 | setulb( | ~~~~~~^ 73 | n,m,x,l,u,nbd,f,g,factr,pgtol,wa,iwa,task,iprint, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 74 | csave,lsave,isave,dsave); | ~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3671:28: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] 3671 | SCITBX_ASSERT(x.size() == n); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3671:5: note: in expansion of macro ‘SCITBX_ASSERT’ 3671 | SCITBX_ASSERT(x.size() == n); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3672:28: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] 3672 | SCITBX_ASSERT(l.size() == n); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3672:5: note: in expansion of macro ‘SCITBX_ASSERT’ 3672 | SCITBX_ASSERT(l.size() == n); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3673:28: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] 3673 | SCITBX_ASSERT(u.size() == n); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3673:5: note: in expansion of macro ‘SCITBX_ASSERT’ 3673 | SCITBX_ASSERT(u.size() == n); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3674:30: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] 3674 | SCITBX_ASSERT(nbd.size() == n); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3674:5: note: in expansion of macro ‘SCITBX_ASSERT’ 3674 | SCITBX_ASSERT(nbd.size() == n); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3675:28: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] 3675 | SCITBX_ASSERT(g.size() == n); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3675:5: note: in expansion of macro ‘SCITBX_ASSERT’ 3675 | SCITBX_ASSERT(g.size() == n); | ^~~~~~~~~~~~~ g++ -o scitbx/fftpack/timing/fftpack_timer -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/fftpack/timing/fftpack_timer.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread -lomptbx -lm In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/dev/driver2.cpp:1: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h: In instantiation of ‘void scitbx::lbfgsb::raw::write_ref1(const std::string&, const ref1&, const char*) [with ElementType = double; std::string = std::__cxx11::basic_string]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/dev/driver2.cpp:102:19: required from here 102 | write_ref1(" ", x); | ~~~~~~~~~~^~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:184:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 184 | for(int i=1;i<=a.size();i++) { | ~^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:188:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 188 | for(int j=0;j&, const ref1&, const ref1&, const ref1&, FloatType&, const ref1&, const FloatType&, const FloatType&, const ref2&, const ref2&, const ref2&, const ref2&, const ref2&, const ref2&, const ref2&, const ref2&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, std::string&, const int&, std::string&, const ref1&, const ref1&, const ref1&, bool) [with FloatType = double; std::string = std::__cxx11::basic_string]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:4433:11: required from ‘void scitbx::lbfgsb::raw::setulb(const int&, const int&, const ref1&, const ref1&, const ref1&, const ref1&, FloatType&, const ref1&, const FloatType&, const FloatType&, const ref1&, const ref1&, std::string&, const int&, std::string&, const ref1&, const ref1&, const ref1&, bool) [with FloatType = double; std::string = std::__cxx11::basic_string]’ 4433 | mainlb(n,m,x,l,u,nbd,f,g,factr,pgtol, | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 4434 | wa.get2(lws, n, m), | ~~~~~~~~~~~~~~~~~~~ 4435 | wa.get2(lwy, n, m), | ~~~~~~~~~~~~~~~~~~~ 4436 | wa.get2(lsy, m, m), | ~~~~~~~~~~~~~~~~~~~ 4437 | wa.get2(lss, m, m), | ~~~~~~~~~~~~~~~~~~~ 4438 | wa.get2(lyy, m, m), | ~~~~~~~~~~~~~~~~~~~ 4439 | wa.get2(lwt, m, m), | ~~~~~~~~~~~~~~~~~~~ 4440 | wa.get2(lwn, 2*m, 2*m), | ~~~~~~~~~~~~~~~~~~~~~~~ 4441 | wa.get2(lsnd, 2*m, 2*m), | ~~~~~~~~~~~~~~~~~~~~~~~~ 4442 | wa.get1(lz, n), | ~~~~~~~~~~~~~~~ 4443 | wa.get1(lr, n), | ~~~~~~~~~~~~~~~ 4444 | wa.get1(ld, n), | ~~~~~~~~~~~~~~~ 4445 | wa.get1(lt, n), | ~~~~~~~~~~~~~~~ 4446 | wa.get1(lwa, 8*m), | ~~~~~~~~~~~~~~~~~~ 4447 | wa.get1(lsg, m), | ~~~~~~~~~~~~~~~~ 4448 | wa.get1(lsgo, m), | ~~~~~~~~~~~~~~~~~ 4449 | wa.get1(lyg, m), | ~~~~~~~~~~~~~~~~ 4450 | wa.get1(lygo, m), | ~~~~~~~~~~~~~~~~~ 4451 | iwa.get1(1, n), | ~~~~~~~~~~~~~~~ 4452 | iwa.get1(n+1, n), | ~~~~~~~~~~~~~~~~~ 4453 | iwa.get1(2*n+1, n), | ~~~~~~~~~~~~~~~~~~~ 4454 | task,iprint,csave,lsave, | ~~~~~~~~~~~~~~~~~~~~~~~~ 4455 | ref1(&isave(22), 23), | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 4456 | dsave, | ~~~~~~ 4457 | enable_stp_init); | ~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/dev/driver2.cpp:70:11: required from here 70 | setulb( | ~~~~~~^ 71 | n,m,x,l,u,nbd,f,g,factr,pgtol,wa,iwa,task,iprint, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 72 | csave,lsave,isave,dsave); | ~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3671:28: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] 3671 | SCITBX_ASSERT(x.size() == n); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3671:5: note: in expansion of macro ‘SCITBX_ASSERT’ 3671 | SCITBX_ASSERT(x.size() == n); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3672:28: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] 3672 | SCITBX_ASSERT(l.size() == n); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3672:5: note: in expansion of macro ‘SCITBX_ASSERT’ 3672 | SCITBX_ASSERT(l.size() == n); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3673:28: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] 3673 | SCITBX_ASSERT(u.size() == n); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3673:5: note: in expansion of macro ‘SCITBX_ASSERT’ 3673 | SCITBX_ASSERT(u.size() == n); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3674:30: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] 3674 | SCITBX_ASSERT(nbd.size() == n); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3674:5: note: in expansion of macro ‘SCITBX_ASSERT’ 3674 | SCITBX_ASSERT(nbd.size() == n); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3675:28: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] 3675 | SCITBX_ASSERT(g.size() == n); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3675:5: note: in expansion of macro ‘SCITBX_ASSERT’ 3675 | SCITBX_ASSERT(g.size() == n); | ^~~~~~~~~~~~~ g++ -o scitbx/math/tests/tst.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -Iscitbx/math/tests -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/tests /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/tests/tst.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/fftpack/timing/test0 -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/fftpack/timing/test0.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread -lomptbx -lm g++ -o scitbx/matrix/tests/tst_cholesky.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -Iscitbx/matrix/tests -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/matrix/tests /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/matrix/tests/tst_cholesky.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/tests/tst -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/math/tests/tst.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread g++ -o scitbx/matrix/tests/tst_givens.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -Iscitbx/matrix/tests -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/matrix/tests /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/matrix/tests/tst_givens.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/lbfgsb/dev/driver1 -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/lbfgsb/dev/driver1.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_timer -lboost_chrono -lm g++ -o scitbx/matrix/tests/tst_householder.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -Iscitbx/matrix/tests -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/matrix/tests /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/matrix/tests/tst_householder.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/matrix/tests/tst_givens -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/matrix/tests/tst_givens.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread g++ -o scitbx/matrix/tests/tst_svd.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -Iscitbx/matrix/tests -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/matrix/tests /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/matrix/tests/tst_svd.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/lbfgsb/dev/driver3 -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/lbfgsb/dev/driver3.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_timer -lboost_chrono -lm g++ -o scitbx/serialization/tst_base_256.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -Iscitbx/serialization -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/serialization /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/serialization/tst_base_256.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/lbfgsb/dev/driver2 -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/lbfgsb/dev/driver2.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_timer -lboost_chrono -lm g++ -o scitbx/sparse/tests/tst_sparse.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -Iscitbx/sparse/tests -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/sparse/tests /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/sparse/tests/tst_sparse.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/matrix/tests/tst_cholesky -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/matrix/tests/tst_cholesky.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread g++ -o scitbx/serialization/tst_base_256 -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/serialization/tst_base_256.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lm g++ -o smtbx/refinement/constraints/tests/tst_geometrical_hydrogens.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints/tests/tst_geometrical_hydrogens.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/constraints/tests/tst_reparametrisation.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints/tests/tst_reparametrisation.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/matrix/tests/tst_householder -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/matrix/tests/tst_householder.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread g++ -o scitbx/matrix/tests/tst_svd -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/matrix/tests/tst_svd.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread g++ -o smtbx/refinement/constraints/tests/tst_special_position.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints/tests/tst_special_position.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/sparse/tests/tst_sparse -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/sparse/tests/tst_sparse.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread g++ -o scitbx/array_family/tst_af_4 -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_af_4.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lm g++ -o smtbx/refinement/constraints/tests/tst_reparametrisation -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread smtbx/refinement/constraints/tests/tst_reparametrisation.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lsmtbx_refinement_constraints -lboost_thread g++ -o smtbx/refinement/constraints/tests/tst_geometrical_hydrogens -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread smtbx/refinement/constraints/tests/tst_geometrical_hydrogens.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lsmtbx_refinement_constraints -lboost_thread g++ -o smtbx/refinement/constraints/tests/tst_special_position -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread smtbx/refinement/constraints/tests/tst_special_position.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lsmtbx_refinement_constraints -lboost_thread scons: done building targets. usr+sys time: 24.08 seconds wall clock time: 13 minutes 44.81 seconds (824.81 seconds total) I: pybuild base:385: cd '/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build'_ && ./bin/libtbx.scons -j 6 scons: Reading SConscript files ... libtbx.scons: using flags from initial environment: CXXFLAGS = -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 CFLAGS = -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection CPPFLAGS = -Wdate-time -D_FORTIFY_SOURCE=2 LDFLAGS = -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 libtbx.scons: OpenMP is disabled. BOOST_PYTHON_LIB_VERSION: boost_python313 BOOST_NUMPY_LIB_VERSION: boost_numpy313 BOOST_VERSION: 109000 Ignored: [Errno 2] No such file or directory: '/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/exe_dev/cbflib.tst_memory' Ignored: [Errno 2] No such file or directory: '/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/exe_dev/cctbx.getting_started' Ignored: [Errno 2] No such file or directory: '/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/exe_dev/cctbx.sym_equiv_sites' Ignored: [Errno 2] No such file or directory: '/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/exe_dev/cctbx.convert_ccp4_symop_lib' Ignored: [Errno 2] No such file or directory: '/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/exe_dev/cctbx.lattice_symmetry' Ignored: [Errno 2] No such file or directory: '/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/exe_dev/cctbx.find_distances' Ignored: [Errno 2] No such file or directory: '/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/exe_dev/cctbx.sys_abs_equiv_space_groups' scons: done reading SConscript files. scons: Building targets ... g++ -o annlib_adaptbx/ann/ann_adaptor.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/annlib_adaptbx/include -Iannlib_adaptbx/src -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/src -Iannlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/ann/ann_adaptor.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o annlib_adaptbx/ann/boost_python/annlib_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/annlib_adaptbx/include -I/usr/include/python3.13 -Iannlib_adaptbx/ann/boost_python/src -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/ann/boost_python/src -Iannlib_adaptbx/ann/boost_python/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/ann/boost_python/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/ann/boost_python/annlib_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/maptbx/blobs_cmd.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/maptbx/blobs_cmd.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/maptbx/asymmetric_map.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/maptbx/asymmetric_map.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/maptbx/skeletons.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/maptbx/skeletons.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/maptbx/dijkstra.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/maptbx/dijkstra.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/xplor/map_reader.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/xplor/map_reader.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/xplor/map_writer.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/xplor/map_writer.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/direct_space_asu/proto/cut.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/direct_space_asu/proto/cut.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/direct_space_asu/proto/reference_table.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/direct_space_asu/proto/reference_table.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/libiotbx_xplor.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libiotbx_xplor.so.0 iotbx/xplor/map_reader.o iotbx/xplor/map_writer.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lm g++ -o cctbx/sgtbx/direct_space_asu/proto/direct_space_asu.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/direct_space_asu/proto/direct_space_asu.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ Create symlinks for: 'lib/libiotbx_xplor.so.0.0.1' 'lib/libiotbx_xplor.so.0'->'lib/libiotbx_xplor.so.0.0.1' 'lib/libiotbx_xplor.so'->'lib/libiotbx_xplor.so.0.0.1' g++ -o cctbx/eltbx/basic.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/eltbx/basic.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/xray_scattering/it1992.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/eltbx/xray_scattering/it1992.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/xray_scattering/wk1995.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/eltbx/xray_scattering/wk1995.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/xray_scattering/n_gaussian_raw.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/eltbx/xray_scattering/n_gaussian_raw.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/xray_scattering/n_gaussian.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/eltbx/xray_scattering/n_gaussian.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/fp_fdp.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/eltbx/fp_fdp.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/henke.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include cctbx/eltbx/henke.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/henke_tables_01_12.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include cctbx/eltbx/henke_tables_01_12.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/henke_tables_13_24.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include cctbx/eltbx/henke_tables_13_24.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/henke_tables_25_36.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include cctbx/eltbx/henke_tables_25_36.cpp g++ -o cctbx/eltbx/henke_tables_37_48.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include cctbx/eltbx/henke_tables_37_48.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/henke_tables_49_60.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include cctbx/eltbx/henke_tables_49_60.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/henke_tables_61_72.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include cctbx/eltbx/henke_tables_61_72.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/henke_tables_73_84.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include cctbx/eltbx/henke_tables_73_84.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/henke_tables_85_92.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include cctbx/eltbx/henke_tables_85_92.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/icsd_radii.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/eltbx/icsd_radii.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/covalent_radii.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/eltbx/covalent_radii.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/neutron.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/eltbx/neutron.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/sasaki.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include cctbx/eltbx/sasaki.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/sasaki_tables_01_12.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include cctbx/eltbx/sasaki_tables_01_12.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/sasaki_tables_13_24.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include cctbx/eltbx/sasaki_tables_13_24.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/sasaki_tables_25_36.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include cctbx/eltbx/sasaki_tables_25_36.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/sasaki_tables_37_48.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include cctbx/eltbx/sasaki_tables_37_48.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/sasaki_tables_49_60.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include cctbx/eltbx/sasaki_tables_49_60.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/sasaki_tables_61_72.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include cctbx/eltbx/sasaki_tables_61_72.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/sasaki_tables_73_82.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include cctbx/eltbx/sasaki_tables_73_82.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/tiny_pse.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/eltbx/tiny_pse.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/wavelengths.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/eltbx/wavelengths.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/electron_scattering/peng1996.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/eltbx/electron_scattering/peng1996.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/attenuation_coefficient.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/eltbx/attenuation_coefficient.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/asu.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/asu.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/bins.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/bins.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/index_generator.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/index_generator.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/index_span.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/index_span.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/match_bijvoet_mates.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/match_bijvoet_mates.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/match_indices.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/match_indices.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/match_multi_indices.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/match_multi_indices.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/sym_equiv.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/sym_equiv.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/bricks.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/bricks.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/change_of_basis_op.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/change_of_basis_op.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/find_affine.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/find_affine.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/group_codes.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/group_codes.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/hall_in.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/hall_in.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/lattice_tr.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/lattice_tr.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/lattice_symmetry.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/lattice_symmetry.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/miller.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/miller.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/reciprocal_space_asu.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/reciprocal_space_asu.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/reciprocal_space_ref_asu.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/reciprocal_space_ref_asu.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/rot_mx.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/rot_mx.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/rot_mx_info.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/rot_mx_info.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/row_echelon_solve.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/row_echelon_solve.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/rt_mx.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/rt_mx.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/select_generators.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/select_generators.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/seminvariant.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/seminvariant.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/site_symmetry.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/space_group.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/space_group.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/space_group_type.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/space_group_type.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/symbols.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/symbols.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/tensor_rank_2.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensor_rank_2.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/tr_group.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tr_group.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/tr_vec.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tr_vec.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/utils.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/utils.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/wyckoff.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/wyckoff.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/reference_settings/hall_symbol_table.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/reference_settings/hall_symbol_table.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/reference_settings/matrix_group_code_table.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/reference_settings/matrix_group_code_table.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/reference_settings/normalizer.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/reference_settings/normalizer.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/reference_settings/wyckoff.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/reference_settings/wyckoff.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/uctbx/uctbx.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/uctbx/uctbx.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/uctbx/spoil_optimization.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/uctbx/spoil_optimization.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/uctbx/crystal_orientation.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/uctbx/crystal_orientation.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o omptbx/stubs.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/omptbx/stubs.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/libomptbx.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libomptbx.so.0 omptbx/stubs.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread Create symlinks for: 'lib/libomptbx.so.0.0.1' 'lib/libomptbx.so.0'->'lib/libomptbx.so.0.0.1' 'lib/libomptbx.so'->'lib/libomptbx.so.0.0.1' g++ -o boost_adaptbx/graph/breadth_first_search_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/graph/breadth_first_search_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o boost_adaptbx/graph/clustering_algorithm_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/graph/clustering_algorithm_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o boost_adaptbx/graph/connected_component_algorithm_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/graph/connected_component_algorithm_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o boost_adaptbx/graph/graph_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/graph/graph_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/libcctbx.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libcctbx.so.0 cctbx/eltbx/basic.o cctbx/eltbx/xray_scattering/it1992.o cctbx/eltbx/xray_scattering/wk1995.o cctbx/eltbx/xray_scattering/n_gaussian_raw.o cctbx/eltbx/xray_scattering/n_gaussian.o cctbx/eltbx/fp_fdp.o cctbx/eltbx/henke.o cctbx/eltbx/henke_tables_01_12.o cctbx/eltbx/henke_tables_13_24.o cctbx/eltbx/henke_tables_25_36.o cctbx/eltbx/henke_tables_37_48.o cctbx/eltbx/henke_tables_49_60.o cctbx/eltbx/henke_tables_61_72.o cctbx/eltbx/henke_tables_73_84.o cctbx/eltbx/henke_tables_85_92.o cctbx/eltbx/icsd_radii.o cctbx/eltbx/covalent_radii.o cctbx/eltbx/neutron.o cctbx/eltbx/sasaki.o cctbx/eltbx/sasaki_tables_01_12.o cctbx/eltbx/sasaki_tables_13_24.o cctbx/eltbx/sasaki_tables_25_36.o cctbx/eltbx/sasaki_tables_37_48.o cctbx/eltbx/sasaki_tables_49_60.o cctbx/eltbx/sasaki_tables_61_72.o cctbx/eltbx/sasaki_tables_73_82.o cctbx/eltbx/tiny_pse.o cctbx/eltbx/wavelengths.o cctbx/eltbx/electron_scattering/peng1996.o cctbx/eltbx/attenuation_coefficient.o cctbx/miller/asu.o cctbx/miller/bins.o cctbx/miller/index_generator.o cctbx/miller/index_span.o cctbx/miller/match_bijvoet_mates.o cctbx/miller/match_indices.o cctbx/miller/match_multi_indices.o cctbx/miller/sym_equiv.o cctbx/sgtbx/bricks.o cctbx/sgtbx/change_of_basis_op.o cctbx/sgtbx/find_affine.o cctbx/sgtbx/group_codes.o cctbx/sgtbx/hall_in.o cctbx/sgtbx/lattice_tr.o cctbx/sgtbx/lattice_symmetry.o cctbx/sgtbx/miller.o cctbx/sgtbx/reciprocal_space_asu.o cctbx/sgtbx/reciprocal_space_ref_asu.o cctbx/sgtbx/rot_mx.o cctbx/sgtbx/rot_mx_info.o cctbx/sgtbx/row_echelon_solve.o cctbx/sgtbx/rt_mx.o cctbx/sgtbx/select_generators.o cctbx/sgtbx/seminvariant.o cctbx/sgtbx/site_symmetry.o cctbx/sgtbx/space_group.o cctbx/sgtbx/space_group_type.o cctbx/sgtbx/symbols.o cctbx/sgtbx/tensor_rank_2.o cctbx/sgtbx/tr_group.o cctbx/sgtbx/tr_vec.o cctbx/sgtbx/utils.o cctbx/sgtbx/wyckoff.o cctbx/sgtbx/reference_settings/hall_symbol_table.o cctbx/sgtbx/reference_settings/matrix_group_code_table.o cctbx/sgtbx/reference_settings/normalizer.o cctbx/sgtbx/reference_settings/wyckoff.o cctbx/uctbx/uctbx.o cctbx/uctbx/spoil_optimization.o cctbx/uctbx/crystal_orientation.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lm Create symlinks for: 'lib/libcctbx.so.0.0.1' 'lib/libcctbx.so.0'->'lib/libcctbx.so.0.0.1' 'lib/libcctbx.so'->'lib/libcctbx.so.0.0.1' g++ -o boost_adaptbx/graph/graph_structure_comparison_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/graph/graph_structure_comparison_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /usr/include/boost/smart_ptr/detail/deprecated_macros.hpp:8, from /usr/include/boost/smart_ptr/detail/sp_counted_base.hpp:20, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:22, from /usr/include/boost/smart_ptr/shared_ptr.hpp:17, from /usr/include/boost/shared_ptr.hpp:17, from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, from /usr/include/boost/python/converter/arg_to_python.hpp:15, from /usr/include/boost/python/call.hpp:15, from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object.hpp:9, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/graph/graph_type.hpp:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/graph/breadth_first_search_ext.cpp:1: /usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/deprecated_macros.hpp:8, from /usr/include/boost/smart_ptr/detail/sp_counted_base.hpp:20, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:22, from /usr/include/boost/smart_ptr/shared_ptr.hpp:17, from /usr/include/boost/shared_ptr.hpp:17, from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, from /usr/include/boost/python/converter/arg_to_python.hpp:15, from /usr/include/boost/python/call.hpp:15, from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object.hpp:9, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/graph/graph_type.hpp:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/graph/clustering_algorithm_ext.cpp:1: /usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/deprecated_macros.hpp:8, from /usr/include/boost/smart_ptr/detail/sp_counted_base.hpp:20, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:22, from /usr/include/boost/smart_ptr/shared_ptr.hpp:17, from /usr/include/boost/shared_ptr.hpp:17, from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, from /usr/include/boost/python/converter/arg_to_python.hpp:15, from /usr/include/boost/python/call.hpp:15, from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object.hpp:9, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/graph/graph_type.hpp:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/graph/graph_ext.cpp:1: /usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/deprecated_macros.hpp:8, from /usr/include/boost/smart_ptr/detail/sp_counted_base.hpp:20, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:22, from /usr/include/boost/smart_ptr/shared_ptr.hpp:17, from /usr/include/boost/shared_ptr.hpp:17, from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, from /usr/include/boost/python/converter/arg_to_python.hpp:15, from /usr/include/boost/python/call.hpp:15, from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object.hpp:9, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/graph/graph_type.hpp:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/graph/graph_structure_comparison_ext.cpp:1: /usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/deprecated_macros.hpp:8, from /usr/include/boost/smart_ptr/detail/sp_counted_base.hpp:20, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:22, from /usr/include/boost/smart_ptr/shared_ptr.hpp:17, from /usr/include/boost/shared_ptr.hpp:17, from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, from /usr/include/boost/python/converter/arg_to_python.hpp:15, from /usr/include/boost/python/call.hpp:15, from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object.hpp:9, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/graph/graph_type.hpp:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/graph/connected_component_algorithm_ext.cpp:1: /usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ g++ -o boost_adaptbx/graph/maximum_clique_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/graph/maximum_clique_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o boost_adaptbx/graph/metric_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/graph/metric_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o boost_adaptbx/graph/min_cut_max_flow_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/graph/min_cut_max_flow_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o boost_adaptbx/graph/utility_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/graph/utility_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /usr/include/boost/smart_ptr/detail/deprecated_macros.hpp:8, from /usr/include/boost/smart_ptr/detail/sp_counted_base.hpp:20, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:22, from /usr/include/boost/smart_ptr/shared_ptr.hpp:17, from /usr/include/boost/shared_ptr.hpp:17, from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, from /usr/include/boost/python/converter/arg_to_python.hpp:15, from /usr/include/boost/python/call.hpp:15, from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object.hpp:9, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/graph/graph_type.hpp:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/graph/maximum_clique_ext.cpp:1: /usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/deprecated_macros.hpp:8, from /usr/include/boost/smart_ptr/detail/sp_counted_base.hpp:20, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:22, from /usr/include/boost/smart_ptr/shared_ptr.hpp:17, from /usr/include/boost/shared_ptr.hpp:17, from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, from /usr/include/boost/python/converter/arg_to_python.hpp:15, from /usr/include/boost/python/call.hpp:15, from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object.hpp:9, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/graph/graph_type.hpp:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/graph/metric_ext.cpp:1: /usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/deprecated_macros.hpp:8, from /usr/include/boost/smart_ptr/detail/sp_counted_base.hpp:20, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:22, from /usr/include/boost/smart_ptr/shared_ptr.hpp:17, from /usr/include/boost/shared_ptr.hpp:17, from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, from /usr/include/boost/python/converter/arg_to_python.hpp:15, from /usr/include/boost/python/call.hpp:15, from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object.hpp:9, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/graph/graph_type.hpp:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/graph/min_cut_max_flow_ext.cpp:1: /usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/deprecated_macros.hpp:8, from /usr/include/boost/smart_ptr/detail/sp_counted_base.hpp:20, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:22, from /usr/include/boost/smart_ptr/shared_ptr.hpp:17, from /usr/include/boost/shared_ptr.hpp:17, from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, from /usr/include/boost/python/converter/arg_to_python.hpp:15, from /usr/include/boost/python/call.hpp:15, from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object.hpp:9, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/graph/graph_type.hpp:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/graph/utility_ext.cpp:1: /usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ g++ -o lib/libcctbx_sgtbx_asu.so.0.0.1 -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread -shared -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -Wl,-soname=libcctbx_sgtbx_asu.so.0 cctbx/sgtbx/direct_space_asu/proto/cut.o cctbx/sgtbx/direct_space_asu/proto/reference_table.o cctbx/sgtbx/direct_space_asu/proto/direct_space_asu.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lm Create symlinks for: 'lib/libcctbx_sgtbx_asu.so.0.0.1' 'lib/libcctbx_sgtbx_asu.so.0'->'lib/libcctbx_sgtbx_asu.so.0.0.1' 'lib/libcctbx_sgtbx_asu.so'->'lib/libcctbx_sgtbx_asu.so.0.0.1' g++ -o lib/libasymmetric_map.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libasymmetric_map.so.0 cctbx/maptbx/asymmetric_map.o cctbx/maptbx/skeletons.o cctbx/maptbx/dijkstra.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -liotbx_xplor -lcctbx_sgtbx_asu -lcctbx -lomptbx -lm Create symlinks for: 'lib/libasymmetric_map.so.0.0.1' 'lib/libasymmetric_map.so.0'->'lib/libasymmetric_map.so.0.0.1' 'lib/libasymmetric_map.so'->'lib/libasymmetric_map.so.0.0.1' g++ -o bin/cctbx_blobs -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread cctbx/maptbx/blobs_cmd.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lasymmetric_map -liotbx_xplor -lcctbx_sgtbx_asu -lcctbx -lomptbx -lm g++ -o boost_adaptbx/hybrid_times_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/hybrid_times_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o boost_adaptbx/meta_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/meta_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o boost_adaptbx/optional_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/optional_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o boost_adaptbx/rational_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/rational_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o boost_adaptbx/std_pair_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/std_pair_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o boost_adaptbx/tests/boost_thread_test.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/tests/boost_thread_test.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o boost_adaptbx/tests/python_streambuf_test_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/tests/python_streambuf_test_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o boost_adaptbx/tests/tst_optional_copy.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/tests/tst_optional_copy.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o boost_adaptbx/tuple_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/boost_adaptbx/tuple_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cbflib_adaptbx/detectors/boost_python/cbflib_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DSWIG_PYTHON_STRICT_BYTE_CHAR -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include/hdf5/serial -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/base/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx/detectors/boost_python/cbflib_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o boost_adaptbx/tests/tst_optional_copy -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread boost_adaptbx/tests/tst_optional_copy.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread g++ -o cbflib_adaptbx/detectors/buffer_based_service.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include/hdf5/serial -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/base/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx/detectors/buffer_based_service.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cbflib_adaptbx/detectors/cbf_adaptor.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include/hdf5/serial -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/base/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx/detectors/cbf_adaptor.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cbflib_adaptbx/detectors/cbf_byte_offset_optimized.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include/hdf5/serial -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/base/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx/detectors/cbf_byte_offset_optimized.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cbflib_adaptbx/detectors/mar_adaptor.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include/hdf5/serial -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/base/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx/detectors/mar_adaptor.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cbflib_adaptbx/detectors/tst_memory.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DCBF_NO_REGEX -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/base/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx/detectors/tst_memory.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o ccp4io_adaptbx/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/ccp4io -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/ccp4io_adaptbx/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ gcc -o ccp4io_adaptbx/fortran_call_stubs.o -c -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DMSETS=32 -DMXTALS=32 -DMCOLUMNS=128 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/ccp4io -I. -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/ccp4io_adaptbx/fortran_call_stubs.c gcc -o ccp4io_adaptbx/printf_wrappers.o -c -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DMSETS=32 -DMXTALS=32 -DMCOLUMNS=128 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/ccp4io -I. -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/ccp4io_adaptbx/printf_wrappers.c g++ -o cctbx/adp_restraints/adp_restraints_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/adp_restraints/adp_restraints_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/adp_restraints/adp_restraints_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/adp_restraints/adp_restraints_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/adp_restraints/adp_similarity_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/adp_restraints/adp_similarity_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/adp_restraints/aniso_restraints_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/adp_restraints/aniso_restraints_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/adp_restraints/fixed_u_eq_adp_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/adp_restraints/fixed_u_eq_adp_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/adp_restraints/isotropic_adp_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/adp_restraints/isotropic_adp_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/adp_restraints/rigid_bond_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/adp_restraints/rigid_bond_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/adp_restraints/rigu_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/adp_restraints/rigu_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/adptbx/boost_python/adptbx_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/adptbx/boost_python/adptbx_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/adptbx/boost_python/anharmonic_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/adptbx/boost_python/anharmonic_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/adptbx/boost_python/hirshfeld.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/adptbx/boost_python/hirshfeld.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/array_family/boost_python/flex_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/array_family/boost_python/flex_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/array_family/boost_python/flex_hendrickson_lattman.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/array_family/boost_python/flex_hendrickson_lattman.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/array_family/boost_python/flex_miller_index.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/array_family/boost_python/flex_miller_index.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/array_family/boost_python/flex_xray_scatterer.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/array_family/boost_python/flex_xray_scatterer.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/boost_python/emma_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/boost_python/emma_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/boost_python/french_wilson_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/boost_python/french_wilson_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/boost_python/orientation_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/boost_python/orientation_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/boost_python/statistics_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/boost_python/statistics_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/covariance/boost_python/covariance_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/covariance/boost_python/covariance_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/crystal/asu_clusters_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/crystal/asu_clusters_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/crystal/close_packing_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/crystal/close_packing_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/crystal/coordination_sequences_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/crystal/coordination_sequences_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/crystal/crystal_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/crystal/crystal_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/crystal/direct_space_asu_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/crystal/direct_space_asu_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/crystal/incremental_pairs_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/crystal/incremental_pairs_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/crystal/neighbors_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/crystal/neighbors_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/crystal/pair_tables_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/crystal/pair_tables_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/crystal/site_cluster_analysis_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/crystal/site_cluster_analysis_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/crystal/symmetry_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/crystal/symmetry_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/dmtbx/boost_python/dmtbx_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/dmtbx/boost_python/dmtbx_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/dmtbx/boost_python/triplet_generator.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/dmtbx/boost_python/triplet_generator.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/dmtbx/boost_python/triplet_phase_relation.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/dmtbx/boost_python/triplet_phase_relation.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/boost_python/attenuation_coefficient_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/eltbx/boost_python/attenuation_coefficient_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/boost_python/chemical_elements_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/eltbx/boost_python/chemical_elements_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/boost_python/covalent_radii_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/eltbx/boost_python/covalent_radii_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/boost_python/fp_fdp_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/eltbx/boost_python/fp_fdp_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/boost_python/henke_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/eltbx/boost_python/henke_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/boost_python/icsd_radii_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/eltbx/boost_python/icsd_radii_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/boost_python/neutron_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/eltbx/boost_python/neutron_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/boost_python/sasaki_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/eltbx/boost_python/sasaki_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/boost_python/tiny_pse_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/eltbx/boost_python/tiny_pse_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/boost_python/wavelengths_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/eltbx/boost_python/wavelengths_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/boost_python/xray_scattering_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/eltbx/boost_python/xray_scattering_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/examples/convert_ccp4_symop_lib.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -Icctbx/examples -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/examples /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/examples/convert_ccp4_symop_lib.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/examples/find_distances.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -Icctbx/examples -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/examples /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/examples/find_distances.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/examples/getting_started.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -Icctbx/examples -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/examples /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/examples/getting_started.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/examples/lattice_symmetry.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -Icctbx/examples -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/examples /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/examples/lattice_symmetry.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/examples/sym_equiv_sites.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -Icctbx/examples -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/examples /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/examples/sym_equiv_sites.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/examples/sys_abs_equiv_space_groups.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -Icctbx/examples -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/examples /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/examples/sys_abs_equiv_space_groups.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/geometry/boost_python/geometry_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry/boost_python/geometry_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/geometry_restraints/angle_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/angle_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/geometry_restraints/bond_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/bond_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scatterer.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/restraints.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/angle.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/angle_bpl.cpp:13: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here 203 | new tensor_rank_3_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here 214 | new tensor_rank_4_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/assert.hpp:64, from /usr/include/boost/optional/optional.hpp:25, from /usr/include/boost/optional.hpp:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref_reductions.h:8, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:31, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:12, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/angle_bpl.cpp:11: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = cctbx::geometry_restraints::angle_proxy; GetitemReturnValuePolicy = boost::python::return_internal_reference<>; std::string = std::__cxx11::basic_string]’ 130 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 131 | w_t, | ~~~~ 132 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/angle_bpl.cpp:75:65: required from here 75 | scitbx::af::boost_python::shared_wrapper::wrap( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 76 | "shared_angle_proxy") | ~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ g++ -o cctbx/geometry_restraints/bond_similarity_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/bond_similarity_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/geometry_restraints/bond_sorted_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/bond_sorted_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/wyckoff.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/sym_equiv_sites.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/crystal/direct_space_asu.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/asu_cache.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/bond.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/bond_misc.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/bond_bpl.cpp:14: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here 203 | new tensor_rank_3_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here 214 | new tensor_rank_4_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/assert.hpp:64, from /usr/include/boost/optional/optional.hpp:25, from /usr/include/boost/optional.hpp:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref_reductions.h:8, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:31, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:12, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/bond_bpl.cpp:10: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = std::map; GetitemReturnValuePolicy = boost::python::return_internal_reference<>; std::string = std::__cxx11::basic_string]’ 130 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 131 | w_t, | ~~~~ 132 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/bond_bpl.cpp:129:23: required from here 129 | shared_w_t::wrap( | ~~~~~~~~~~~~~~~~^ 130 | "bond_params_table") | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = cctbx::geometry_restraints::bond_simple_proxy; GetitemReturnValuePolicy = boost::python::return_internal_reference<>; std::string = std::__cxx11::basic_string]’ 130 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 131 | w_t, | ~~~~ 132 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/bond_bpl.cpp:232:25: required from here 232 | shared_w_t::wrap( | ~~~~~~~~~~~~~~~~^ 233 | "shared_bond_simple_proxy") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = cctbx::geometry_restraints::bond_asu_proxy; GetitemReturnValuePolicy = boost::python::return_internal_reference<>; std::string = std::__cxx11::basic_string]’ 130 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 131 | w_t, | ~~~~ 132 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/bond_bpl.cpp:340:25: required from here 340 | shared_w_t::wrap( | ~~~~~~~~~~~~~~~~^ 341 | "shared_bond_asu_proxy") | ~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scatterer.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/restraints.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/bond_similarity.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/bond_similarity_bpl.cpp:12: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i, scitbx::af::trivial_accessor>&, const cctbx::geometry_restraints::bond_similarity_proxy&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/bond_similarity.h:84:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 84 | for(int i=0;i, scitbx::af::trivial_accessor>&, const cctbx::geometry_restraints::bond_similarity_proxy&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/bond_similarity.h:108:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 108 | for(int i=0;i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here 203 | new tensor_rank_3_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here 214 | new tensor_rank_4_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/assert.hpp:64, from /usr/include/boost/optional/optional.hpp:25, from /usr/include/boost/optional.hpp:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref_reductions.h:8, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:31, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:12, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/bond_similarity_bpl.cpp:9: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = cctbx::geometry_restraints::bond_similarity_proxy; GetitemReturnValuePolicy = boost::python::return_internal_reference<>; std::string = std::__cxx11::basic_string]’ 130 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 131 | w_t, | ~~~~ 132 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/bond_similarity_bpl.cpp:55:44: required from here 54 | scitbx::af::boost_python::shared_wrapper< | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | bond_similarity_proxy, rir>::wrap( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 56 | "shared_bond_similarity_proxy"); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared, 2> >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared, 2> >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = scitbx::af::tiny, 2>; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ 130 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 131 | w_t, | ~~~~ 132 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/bond_similarity_bpl.cpp:79:54: required from here 78 | scitbx::af::boost_python::shared_wrapper< | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 79 | af::tiny, 2>, rbv>::wrap( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 80 | "sites_array"); | ~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ g++ -o cctbx/geometry_restraints/chirality_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/chirality_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h: In constructor ‘scitbx::af::shared_plain::shared_plain(const size_type&) [with ElementType = scitbx::vec3]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:132:34: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/15/memory:71, from /usr/include/boost/config/no_tr1/memory.hpp:21, from /usr/include/boost/get_pointer.hpp:14, from /usr/include/boost/python/object/pointer_holder.hpp:11, from /usr/include/boost/python/to_python_indirect.hpp:10, from /usr/include/boost/python/converter/arg_to_python.hpp:10, from /usr/include/boost/python/call.hpp:15, from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object.hpp:9, from /usr/include/boost/python/tuple.hpp:10, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/shared_wrapper_pickle.hpp:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/angle_bpl.cpp:2: /usr/include/c++/15/bits/stl_uninitialized.h:526:5: note: by argument 3 of type ‘const scitbx::vec3&’ to ‘_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = scitbx::vec3*; _Size = long unsigned int; _Tp = scitbx::vec3]’ declared here 526 | uninitialized_fill_n(_ForwardIterator __first, _Size __n, const _Tp& __x) | ^~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:132:48: note: ‘’ declared here 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); | ^~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/wyckoff.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/sym_equiv_sites.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/crystal/direct_space_asu.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/asu_cache.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/bond.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/bond_sorted.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/bond_sorted_bpl.cpp:9: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here 203 | new tensor_rank_3_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here 214 | new tensor_rank_4_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/crystal/direct_space_asu.h: In instantiation of ‘int cctbx::crystal::direct_space_asu::asu_mappings::find_i_sym(unsigned int, const cctbx::sgtbx::rt_mx&) const [with FloatType = double; IntShiftType = int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/crystal/pair_tables.h:643:46: required from ‘bool cctbx::crystal::pair_asu_table::process_pair(unsigned int, unsigned int, const cctbx::sgtbx::rt_mx&) [with FloatType = double; IntShiftType = int]’ 643 | int j_sym = asu_mappings_->find_i_sym(j_seq, rt_mx_j); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/crystal/pair_tables.h:543:35: required from ‘cctbx::crystal::pair_asu_table& cctbx::crystal::pair_asu_table::add_pair(const scitbx::af::tiny&) [with FloatType = double; IntShiftType = int]’ 543 | bool is_new = process_pair(i_seqs[0], i_seqs[1], rt_mx_ji); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/bond_sorted.h:16:30: required from here 16 | pair_asu_table.add_pair(bond_simple_proxies[i].i_seqs); | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/crystal/direct_space_asu.h:859:33: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector, std::allocator > >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 859 | for(int i_sym=0; i_sym, std::allocator > >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 869 | for(int i_sym=0; i_sym::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here 203 | new tensor_rank_3_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here 214 | new tensor_rank_4_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ g++ -o cctbx/geometry_restraints/dihedral_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/dihedral_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /usr/include/boost/assert.hpp:64, from /usr/include/boost/optional/optional.hpp:25, from /usr/include/boost/optional.hpp:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref_reductions.h:8, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:31, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:12, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/chirality_bpl.cpp:11: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = cctbx::geometry_restraints::chirality_proxy; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ 130 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 131 | w_t, | ~~~~ 132 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/chirality_bpl.cpp:75:60: required from here 75 | scitbx::af::boost_python::shared_wrapper::wrap( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 76 | "shared_chirality_proxy") | ~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scatterer.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/restraints.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/dihedral.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/dihedral_bpl.cpp:12: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i cctbx::geometry_restraints::shared_proxy_remove(const scitbx::af::const_ref&, const scitbx::af::const_ref&) [with ProxyType = dihedral_proxy]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/dihedral_bpl.cpp:110:17: required from here 110 | shared_proxy_remove, ( | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/proxy_select.h:187:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 187 | if (match_ctr != i_seqs.size()) { | ~~~~~~~~~~^~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:6: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here 203 | new tensor_rank_3_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here 214 | new tensor_rank_4_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/assert.hpp:64, from /usr/include/boost/optional/optional.hpp:25, from /usr/include/boost/optional.hpp:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref_reductions.h:8, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:31, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:12, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/dihedral_bpl.cpp:11: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = cctbx::geometry_restraints::dihedral_proxy; GetitemReturnValuePolicy = boost::python::return_internal_reference<>; std::string = std::__cxx11::basic_string]’ 130 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 131 | w_t, | ~~~~ 132 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/dihedral_bpl.cpp:84:65: required from here 84 | scitbx::af::boost_python::shared_wrapper::wrap( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 85 | "shared_dihedral_proxy") | ~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ g++ -o cctbx/geometry_restraints/geometry_restraints_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/geometry_restraints_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/geometry_restraints/motif_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/motif_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/geometry_restraints/nonbonded_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/nonbonded_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/geometry_restraints/nonbonded_sorted_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/nonbonded_sorted_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/wyckoff.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/sym_equiv_sites.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/crystal/direct_space_asu.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/asu_cache.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/nonbonded.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/nonbonded_bpl.cpp:11: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here 203 | new tensor_rank_3_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here 214 | new tensor_rank_4_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/assert.hpp:64, from /usr/include/boost/optional/optional.hpp:25, from /usr/include/boost/optional.hpp:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref_reductions.h:8, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:31, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:12, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/nonbonded_bpl.cpp:10: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = cctbx::geometry_restraints::nonbonded_simple_proxy; GetitemReturnValuePolicy = boost::python::return_internal_reference<>; std::string = std::__cxx11::basic_string]’ 130 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 131 | w_t, | ~~~~ 132 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/nonbonded_bpl.cpp:92:25: required from here 92 | shared_w_t::wrap("shared_nonbonded_simple_proxy") | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = cctbx::geometry_restraints::nonbonded_asu_proxy; GetitemReturnValuePolicy = boost::python::return_internal_reference<>; std::string = std::__cxx11::basic_string]’ 130 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 131 | w_t, | ~~~~ 132 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/nonbonded_bpl.cpp:125:25: required from here 125 | shared_w_t::wrap( | ~~~~~~~~~~~~~~~~^ 126 | "shared_nonbonded_asu_proxy") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/wyckoff.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/sym_equiv_sites.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/crystal/direct_space_asu.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/asu_cache.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/nonbonded.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/nonbonded_sorted.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/nonbonded_sorted_bpl.cpp:8: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here 203 | new tensor_rank_3_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here 214 | new tensor_rank_4_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/crystal/neighbors_fast.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/crystal/pair_tables.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/nonbonded_sorted.h:5: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/cubicles.h: In instantiation of ‘scitbx::vec3 scitbx::cubicles::i_cubicle(const SiteType&) const [with SiteType = cctbx::cartesian; CubicleContentType = std::vector; FloatType = double]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/crystal/neighbors_fast.h:77:34: required from ‘cctbx::crystal::neighbors::fast_pair_generator::fast_pair_generator(const boost::shared_ptr >&, const FloatType&, bool, const FloatType&, const FloatType&) [with FloatType = double; IntShiftType = int]’ 77 | cubicles_.i_cubicle(mappings[mi.i_seq][mi.i_sym].mapped_site())); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/nonbonded_sorted.h:80:27: required from here 80 | min_cubicle_edge); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/cubicles.h:176:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const unsigned int’ [-Wsign-compare] 176 | else if (j >= ref.accessor()[i]) j = ref.accessor()[i]-1; | ~~^~~~~~~~~~~~~~~~~~ g++ -o cctbx/geometry_restraints/parallelity_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/parallelity_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/geometry_restraints/planarity_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/planarity_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /usr/include/boost/assert.hpp:64, from /usr/include/boost/optional/optional.hpp:25, from /usr/include/boost/optional.hpp:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref_reductions.h:8, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:31, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:12, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/parallelity_bpl.cpp:11: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = cctbx::geometry_restraints::parallelity_proxy; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ 130 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 131 | w_t, | ~~~~ 132 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/parallelity_bpl.cpp:82:60: required from here 82 | scitbx::af::boost_python::shared_wrapper::wrap( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 83 | "shared_parallelity_proxy") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ g++ -o cctbx/maptbx/asymmetric_map_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/maptbx/asymmetric_map_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /usr/include/boost/assert.hpp:64, from /usr/include/boost/optional/optional.hpp:25, from /usr/include/boost/optional.hpp:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref_reductions.h:8, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:31, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:12, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/planarity_bpl.cpp:11: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = cctbx::geometry_restraints::planarity_proxy; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ 130 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 131 | w_t, | ~~~~ 132 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/planarity_bpl.cpp:62:23: required from here 62 | shared_w_t::wrap( | ~~~~~~~~~~~~~~~~^ 63 | "shared_planarity_proxy") | ~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ g++ -o cctbx/maptbx/bcr/bcr_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/maptbx/bcr/bcr_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/maptbx/boost_python/coordinate_transformers.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/maptbx/boost_python/coordinate_transformers.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/maptbx/boost_python/grid_indices_around_sites.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/maptbx/boost_python/grid_indices_around_sites.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/maptbx/boost_python/grid_tags.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/maptbx/boost_python/grid_tags.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/maptbx/boost_python/gridding.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/maptbx/boost_python/gridding.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/maptbx/boost_python/maptbx_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/maptbx/boost_python/maptbx_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/maptbx/boost_python/misc.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/maptbx/boost_python/misc.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/maptbx/boost_python/peak_search.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/maptbx/boost_python/peak_search.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/maptbx/boost_python/pymol_interface.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/maptbx/boost_python/pymol_interface.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/maptbx/boost_python/statistics.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/maptbx/boost_python/statistics.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/maptbx/boost_python/structure_factors.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/maptbx/boost_python/structure_factors.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/masks/boost_python/masks_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/masks/boost_python/masks_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/math/boost_python/math_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/math/boost_python/math_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/math/time_trigonometry.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/math/time_trigonometry.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/math/time_trigonometry -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread cctbx/math/time_trigonometry.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lboost_thread -lboost_timer -lm g++ -o cctbx/merging/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/merging/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/boost_python/amplitude_normalisation.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/boost_python/amplitude_normalisation.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/boost_python/asu.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/boost_python/asu.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/boost_python/bins.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/boost_python/bins.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/boost_python/change_basis.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/boost_python/change_basis.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/boost_python/expand_to_p1.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/boost_python/expand_to_p1.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/boost_python/f_calc_map.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/boost_python/f_calc_map.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/boost_python/index_generator.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/boost_python/index_generator.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/boost_python/index_span.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/boost_python/index_span.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/boost_python/lookup_utils.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/boost_python/lookup_utils.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/boost_python/match_bijvoet_mates.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/boost_python/match_bijvoet_mates.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/boost_python/match_indices.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/boost_python/match_indices.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/boost_python/match_multi_indices.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/boost_python/match_multi_indices.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/boost_python/merge_equivalents.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/boost_python/merge_equivalents.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/boost_python/miller_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/boost_python/miller_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/boost_python/phase_integrator.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/boost_python/phase_integrator.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/boost_python/phase_transfer.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/boost_python/phase_transfer.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/boost_python/randomize_amplitude_and_phase.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/boost_python/randomize_amplitude_and_phase.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/boost_python/slices.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/boost_python/slices.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/boost_python/sym_equiv.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/boost_python/sym_equiv.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/multipolar/aspherical_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/multipolar/aspherical_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/boost_python/brick.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/boost_python/brick.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/boost_python/change_of_basis.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/boost_python/change_of_basis.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/boost_python/find_affine.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/boost_python/find_affine.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/boost_python/lattice_symmetry.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/boost_python/lattice_symmetry.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/boost_python/phase_info.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/boost_python/phase_info.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/boost_python/reciprocal_space_asu.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/boost_python/reciprocal_space_asu.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/boost_python/rot_mx.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/boost_python/rot_mx.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/boost_python/rt_mx.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/boost_python/rt_mx.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/boost_python/search_symmetry.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/boost_python/search_symmetry.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/boost_python/select_generators.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/boost_python/select_generators.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/boost_python/seminvariant.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/boost_python/seminvariant.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/boost_python/sgtbx_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/boost_python/sgtbx_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/boost_python/site_symmetry.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/boost_python/site_symmetry.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/boost_python/space_group.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/boost_python/space_group.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/boost_python/space_group_type.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/boost_python/space_group_type.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/boost_python/sym_equiv_sites.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/boost_python/sym_equiv_sites.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/boost_python/symbols.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/boost_python/symbols.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/boost_python/tensor_rank_2.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/boost_python/tensor_rank_2.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/boost_python/tensors.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/boost_python/tensors.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/boost_python/tr_vec.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/boost_python/tr_vec.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/boost_python/wyckoff.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/boost_python/wyckoff.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/direct_space_asu/proto/asu_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/direct_space_asu/proto/asu_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/direct_space_asu/proto/tst_asu.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/direct_space_asu/proto/tst_asu.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/symmetry_search/boost_python/symmetry_search_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/symmetry_search/boost_python/symmetry_search_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/direct_space_asu/proto/tst_asu -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread cctbx/sgtbx/direct_space_asu/proto/tst_asu.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx_sgtbx_asu -lcctbx -lm g++ -o cctbx/translation_search/boost_python/fast_nv1995.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/translation_search/boost_python/fast_nv1995.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/translation_search/boost_python/fast_terms.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/translation_search/boost_python/fast_terms.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/translation_search/boost_python/symmetry_flags.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/translation_search/boost_python/symmetry_flags.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/translation_search/boost_python/translation_search_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/translation_search/boost_python/translation_search_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/uctbx/boost_python/fast_minimum_reduction.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/uctbx/boost_python/fast_minimum_reduction.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/uctbx/boost_python/niggli_reduction.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/uctbx/boost_python/niggli_reduction.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/uctbx/boost_python/uctbx_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/uctbx/boost_python/uctbx_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/uctbx/determine_unit_cell/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_SINGLEFILE_NCDIST -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/uctbx/determine_unit_cell/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/xray/boost_python/conversions.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/conversions.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/xray/boost_python/curvatures_simple.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/curvatures_simple.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/xray/boost_python/each_hkl_gradients_direct.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/each_hkl_gradients_direct.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/xray/boost_python/extinction.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/extinction.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/xray/boost_python/f_model_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/f_model_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scatterer.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scattering_type_registry.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/gradients_direct.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/each_hkl_gradients_direct.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/each_hkl_gradients_direct.cpp:3: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here 203 | new tensor_rank_3_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here 214 | new tensor_rank_4_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/uctbx.h:11, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/change_of_basis_op.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tr_group.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/space_group.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_constraints.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:4: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small_plain.h: In instantiation of ‘scitbx::af::small_plain::small_plain(const OtherElementType*, const OtherElementType*) [with OtherElementType = float; ElementType = double; long unsigned int N = 10]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small.h:50:33: required from ‘scitbx::af::small::small(const OtherElementType*, const OtherElementType*) [with OtherElementType = float; ElementType = double; long unsigned int N = 10]’ 50 | : base_class(first, last) | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/eltbx/xray_scattering.h:155:11: required from ‘cctbx::eltbx::xray_scattering::gaussian cctbx::eltbx::xray_scattering::base::fetch() const [with long unsigned int N = 4]’ 155 | small_t(entry_->a, entry_->a+N), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scattering_type_registry.h:192:40: required from here 191 | ugs[ui] = eltbx::xray_scattering::it1992( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 192 | pair->first, exact).fetch(); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small_plain.h:69:15: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘long int’ [-Wsign-compare] 69 | if (N < last - first) throw_range_error(); | ~~^~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:6: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here 203 | new tensor_rank_3_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here 214 | new tensor_rank_4_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/uctbx.h:11, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/change_of_basis_op.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tr_group.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/space_group.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_constraints.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:4: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small_plain.h: In instantiation of ‘scitbx::af::small_plain::small_plain(const OtherElementType*, const OtherElementType*) [with OtherElementType = float; ElementType = double; long unsigned int N = 10]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small.h:50:33: required from ‘scitbx::af::small::small(const OtherElementType*, const OtherElementType*) [with OtherElementType = float; ElementType = double; long unsigned int N = 10]’ 50 | : base_class(first, last) | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/eltbx/xray_scattering.h:155:11: required from ‘cctbx::eltbx::xray_scattering::gaussian cctbx::eltbx::xray_scattering::base::fetch() const [with long unsigned int N = 4]’ 155 | small_t(entry_->a, entry_->a+N), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scattering_type_registry.h:192:40: required from here 191 | ugs[ui] = eltbx::xray_scattering::it1992( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 192 | pair->first, exact).fetch(); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small_plain.h:69:15: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘long int’ [-Wsign-compare] 69 | if (N < last - first) throw_range_error(); | ~~^~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/match_indices.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/lookup_utils.h:11, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/f_model.h:11, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/f_model_bpl.cpp:3: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/match.h:16:34: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 16 | struct additive_sigma : std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/15/string:51, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/istream:42, from /usr/include/c++/15/sstream:42, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:31, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/f_model.h:4: /usr/include/c++/15/bits/stl_function.h:134:12: note: declared here 134 | struct binary_function | ^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/match.h:18:20: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 18 | typedef std::binary_function base_type; | ^~~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:134:12: note: declared here 134 | struct binary_function | ^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/match.h:31:27: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 31 | struct average : std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:134:12: note: declared here 134 | struct binary_function | ^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/match.h:33:20: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 33 | typedef std::binary_function base_type; | ^~~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:134:12: note: declared here 134 | struct binary_function | ^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/f_model.h: In instantiation of ‘cctbx::xray::f_model_core_data::f_model_core_data cctbx::xray::f_model_core_data::f_model_core_data::select(const scitbx::af::const_ref&) const [with FloatType = double]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/f_model_bpl.cpp:174:32: required from here 174 | .def("select", &w_t::select) | ^~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/f_model.h:732:38: warning: comparison of integer expressions of different signedness: ‘const int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 732 | CCTBX_ASSERT( iselection[ii]::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here 203 | new tensor_rank_3_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here 214 | new tensor_rank_4_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/uctbx.h:11, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/change_of_basis_op.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tr_group.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/space_group.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_constraints.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:4: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small_plain.h: In instantiation of ‘scitbx::af::small_plain::small_plain(const OtherElementType*, const OtherElementType*) [with OtherElementType = float; ElementType = double; long unsigned int N = 10]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small.h:50:33: required from ‘scitbx::af::small::small(const OtherElementType*, const OtherElementType*) [with OtherElementType = float; ElementType = double; long unsigned int N = 10]’ 50 | : base_class(first, last) | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/eltbx/xray_scattering.h:155:11: required from ‘cctbx::eltbx::xray_scattering::gaussian cctbx::eltbx::xray_scattering::base::fetch() const [with long unsigned int N = 4]’ 155 | small_t(entry_->a, entry_->a+N), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scattering_type_registry.h:192:40: required from here 191 | ugs[ui] = eltbx::xray_scattering::it1992( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 192 | pair->first, exact).fetch(); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small_plain.h:69:15: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘long int’ [-Wsign-compare] 69 | if (N < last - first) throw_range_error(); | ~~^~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:6: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here 203 | new tensor_rank_3_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here 214 | new tensor_rank_4_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/uctbx.h:11, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/change_of_basis_op.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tr_group.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/space_group.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_constraints.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:4: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small_plain.h: In instantiation of ‘scitbx::af::small_plain::small_plain(const OtherElementType*, const OtherElementType*) [with OtherElementType = float; ElementType = double; long unsigned int N = 10]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small.h:50:33: required from ‘scitbx::af::small::small(const OtherElementType*, const OtherElementType*) [with OtherElementType = float; ElementType = double; long unsigned int N = 10]’ 50 | : base_class(first, last) | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/eltbx/xray_scattering.h:155:11: required from ‘cctbx::eltbx::xray_scattering::gaussian cctbx::eltbx::xray_scattering::base::fetch() const [with long unsigned int N = 4]’ 155 | small_t(entry_->a, entry_->a+N), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scattering_type_registry.h:192:40: required from here 191 | ugs[ui] = eltbx::xray_scattering::it1992( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 192 | pair->first, exact).fetch(); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small_plain.h:69:15: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘long int’ [-Wsign-compare] 69 | if (N < last - first) throw_range_error(); | ~~^~~~~~~~~~~~~~ g++ -o cctbx/xray/boost_python/minimization.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/minimization.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/xray/boost_python/parameter_map.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/parameter_map.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/match_indices.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/lookup_utils.h:11, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/grouped_data.h:14, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/grouped_data.cpp:3: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/match.h:16:34: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 16 | struct additive_sigma : std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/15/string:51, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/istream:42, from /usr/include/c++/15/sstream:42, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:31, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/grouped_data.h:4: /usr/include/c++/15/bits/stl_function.h:134:12: note: declared here 134 | struct binary_function | ^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/match.h:18:20: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 18 | typedef std::binary_function base_type; | ^~~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:134:12: note: declared here 134 | struct binary_function | ^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/match.h:31:27: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 31 | struct average : std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:134:12: note: declared here 134 | struct binary_function | ^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/match.h:33:20: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 33 | typedef std::binary_function base_type; | ^~~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:134:12: note: declared here 134 | struct binary_function | ^~~~~~~~~~~~~~~ g++ -o cctbx/xray/boost_python/sampled_model_density.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/sampled_model_density.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/grouped_data.h: In instantiation of ‘FloatType cctbx::xray::grouped_data::merger::bic() [with FloatType = double]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/grouped_data.cpp:68:29: required from here 68 | .def("bic", &w_t::bic) | ^~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/grouped_data.h:257:30: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 257 | for (long int ii=0;ii::r_abs() [with FloatType = double]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/grouped_data.cpp:69:31: required from here 69 | .def("r_abs", &w_t::r_abs) | ^~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/grouped_data.h:271:30: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 271 | for (long int ii=0;ii cctbx::xray::grouped_data::merger::combine_obs(long int) [with FloatType = double]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/grouped_data.h:258:24: required from ‘FloatType cctbx::xray::grouped_data::merger::bic() [with FloatType = double]’ 258 | tmp_result = combine_obs( ii ); | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/grouped_data.cpp:68:29: required from here 68 | .def("bic", &w_t::bic) | ^~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/grouped_data.h:213:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 213 | for (int ii=1;ii::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 231 | for (int ii=1;ii::unmerged_data(scitbx::af::const_ref >, scitbx::af::const_ref >, const cctbx::sgtbx::space_group&, const bool&) [with FloatType = double]’: /usr/include/boost/python/object/value_holder.hpp:131:11: required from ‘boost::python::objects::value_holder::value_holder(PyObject*, A0, A1, A2, A3) [with A0 = boost::python::objects::reference_to_value >&>; A1 = boost::python::objects::reference_to_value >&>; A2 = boost::python::objects::reference_to_value; A3 = boost::python::objects::reference_to_value; Value = cctbx::xray::grouped_data::unmerged_data; PyObject = _object]’ 131 | PyObject* self BOOST_PP_COMMA_IF(N) BOOST_PP_ENUM_BINARY_PARAMS_Z(1, N, A, a)) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 132 | : m_held( | ~~~~~~~~~ 133 | BOOST_PP_REPEAT_1ST(N, BOOST_PYTHON_UNFORWARD_LOCAL, nil) | ~ /usr/include/boost/python/object/make_holder.hpp:95:18: required from ‘static void boost::python::objects::make_holder<4>::apply::execute(PyObject*, t0, t1, t2, t3) [with Holder = boost::python::objects::value_holder >; ArgList = boost::mpl::vector4 >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&>; PyObject = _object; t0 = const scitbx::af::const_ref >&; t1 = const scitbx::af::const_ref >&; t2 = const cctbx::sgtbx::space_group&; t3 = const bool&]’ 95 | try { | ~^ 96 | (new (memory) Holder( | ~~~~~~~~~~~~~~~~~~~~~ /usr/include/boost/python/detail/make_keyword_range_fn.hpp:63:47: required from ‘boost::python::api::object boost::python::detail::make_keyword_range_constructor(const CallPolicies&, const keyword_range&, Holder*, ArgList*, Arity*) [with ArgList = boost::mpl::vector4 >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&>; Arity = boost::mpl::size >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&> >; Holder = boost::python::objects::value_holder >; CallPolicies = boost::python::default_call_policies; keyword_range = std::pair]’ 63 | return detail::make_keyword_range_function( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 64 | objects::make_holder | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 65 | ::template apply::execute | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 66 | , policies | ~~~~~~~~~~ 67 | , kw); | ~~~~~ /usr/include/boost/python/init.hpp:310:66: required from ‘void boost::python::detail::def_init_aux(ClassT&, const Signature&, NArgs, const CallPoliciesT&, const char*, const keyword_range&) [with ClassT = boost::python::class_ >; CallPoliciesT = boost::python::default_call_policies; Signature = boost::mpl::vector4 >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&>; NArgs = boost::mpl::size >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&> >; keyword_range = std::pair]’ 310 | , detail::make_keyword_range_constructor( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 311 | policies | ~~~~~~~~ 312 | , keywords_ | ~~~~~~~~~~~ 313 | , (typename ClassT::metadata::holder*)0 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 314 | ) | ~ /usr/include/boost/python/init.hpp:377:31: required from ‘static void boost::python::detail::define_class_init_helper<0>::apply(ClassT&, const CallPoliciesT&, const Signature&, NArgs, const char*, const boost::python::detail::keyword_range&) [with ClassT = boost::python::class_ >; CallPoliciesT = boost::python::default_call_policies; Signature = boost::mpl::vector4 >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&>; NArgs = boost::mpl::size >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&> >; boost::python::detail::keyword_range = std::pair]’ 377 | detail::def_init_aux(cl, args, NArgs(), policies, doc, keywords); | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/boost/python/init.hpp:149:67: required from ‘void boost::python::init_base::visit(classT&) const [with classT = boost::python::class_ >; DerivedT = boost::python::init >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&>]’ 149 | detail::define_class_init_helper::apply( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 150 | cl | ~~ 151 | , derived().call_policies() | ~~~~~~~~~~~~~~~~~~~~~~~~~~~ 152 | , signature() | ~~~~~~~~~~~~~ 153 | , n_arguments() | ~~~~~~~~~~~~~~~ 154 | , derived().doc_string() | ~~~~~~~~~~~~~~~~~~~~~~~~ 155 | , derived().keywords()); | ~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/boost/python/def_visitor.hpp:31:34: required from ‘static void boost::python::def_visitor_access::visit(const V&, classT&) [with V = boost::python::def_visitor >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&> >; classT = boost::python::class_ >]’ 31 | v.derived_visitor().visit(c); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /usr/include/boost/python/def_visitor.hpp:67:34: required from ‘void boost::python::def_visitor::visit(classT&) const [with classT = boost::python::class_ >; DerivedVisitor = boost::python::init >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&>]’ 67 | def_visitor_access::visit(*this, c); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /usr/include/boost/python/class.hpp:221:22: required from ‘boost::python::class_::self& boost::python::class_::def(const boost::python::def_visitor&) [with Derived = boost::python::init >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&>; W = cctbx::xray::grouped_data::unmerged_data; X1 = boost::python::detail::not_specified; X2 = boost::python::detail::not_specified; X3 = boost::python::detail::not_specified; self = boost::python::class_ >]’ 221 | visitor.visit(*this); | ~~~~~~~~~~~~~^~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/grouped_data.cpp:27:15: required from here 26 | class_("unmerged_data", no_init) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 27 | .def(init< scitbx::af::const_ref< cctbx::miller::index<> > const&, | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 28 | scitbx::af::const_ref< cctbx::miller::index<> > const&, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 29 | sgtbx::space_group const&, | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 30 | bool const& | ~~~~~~~~~~~ 31 | > | ~ 32 | (( arg("hkl_obs"), | ~~~~~~~~~~~~~~~~~~ 33 | arg("asu_hkl"), | ~~~~~~~~~~~~~~~ 34 | arg("space_group"), | ~~~~~~~~~~~~~~~~~~~ 35 | arg("anomalous_flag") ))) | ~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/grouped_data.h:54:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 54 | for (int ii=0;ii >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 61 | for (int ii=0; ii >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 67 | CCTBX_ASSERT( tmp_index < asu_hkl.size() ); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/grouped_data.h:67:11: note: in expansion of macro ‘CCTBX_ASSERT’ 67 | CCTBX_ASSERT( tmp_index < asu_hkl.size() ); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/grouped_data.h: In instantiation of ‘cctbx::xray::grouped_data::merger::merger(scitbx::af::const_ref >, scitbx::af::const_ref, scitbx::af::const_ref, const cctbx::sgtbx::space_group&, const bool&, const cctbx::uctbx::unit_cell&) [with FloatType = double]’: /usr/include/boost/python/object/value_holder.hpp:131:11: required from ‘boost::python::objects::value_holder::value_holder(PyObject*, A0, A1, A2, A3, A4, A5) [with A0 = boost::python::objects::reference_to_value >&>; A1 = boost::python::objects::reference_to_value&>; A2 = boost::python::objects::reference_to_value&>; A3 = boost::python::objects::reference_to_value; A4 = boost::python::objects::reference_to_value; A5 = boost::python::objects::reference_to_value; Value = cctbx::xray::grouped_data::merger; PyObject = _object]’ 131 | PyObject* self BOOST_PP_COMMA_IF(N) BOOST_PP_ENUM_BINARY_PARAMS_Z(1, N, A, a)) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 132 | : m_held( | ~~~~~~~~~ 133 | BOOST_PP_REPEAT_1ST(N, BOOST_PYTHON_UNFORWARD_LOCAL, nil) | ~ /usr/include/boost/python/object/make_holder.hpp:95:18: required from ‘static void boost::python::objects::make_holder<6>::apply::execute(PyObject*, t0, t1, t2, t3, t4, t5) [with Holder = boost::python::objects::value_holder >; ArgList = boost::mpl::vector6 >&, const scitbx::af::const_ref&, const scitbx::af::const_ref&, const cctbx::sgtbx::space_group&, const bool&, const cctbx::uctbx::unit_cell&>; PyObject = _object; t0 = const scitbx::af::const_ref >&; t1 = const scitbx::af::const_ref&; t2 = const scitbx::af::const_ref&; t3 = const cctbx::sgtbx::space_group&; t4 = const bool&; t5 = const cctbx::uctbx::unit_cell&]’ 95 | try { | ~^ 96 | (new (memory) Holder( | ~~~~~~~~~~~~~~~~~~~~~ /usr/include/boost/python/detail/make_keyword_range_fn.hpp:63:47: required from ‘boost::python::api::object boost::python::detail::make_keyword_range_constructor(const CallPolicies&, const keyword_range&, Holder*, ArgList*, Arity*) [with ArgList = boost::mpl::vector6 >&, const scitbx::af::const_ref&, const scitbx::af::const_ref&, const cctbx::sgtbx::space_group&, const bool&, const cctbx::uctbx::unit_cell&>; Arity = boost::mpl::size >&, const scitbx::af::const_ref&, const scitbx::af::const_ref&, const cctbx::sgtbx::space_group&, const bool&, const cctbx::uctbx::unit_cell&> >; Holder = boost::python::objects::value_holder >; CallPolicies = boost::python::default_call_policies; keyword_range = std::pair]’ 63 | return detail::make_keyword_range_function( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 64 | objects::make_holder | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 65 | ::template apply::execute | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 66 | , policies | ~~~~~~~~~~ 67 | , kw); | ~~~~~ /usr/include/boost/python/init.hpp:310:66: required from ‘void boost::python::detail::def_init_aux(ClassT&, const Signature&, NArgs, const CallPoliciesT&, const char*, const keyword_range&) [with ClassT = boost::python::class_ >; CallPoliciesT = boost::python::default_call_policies; Signature = boost::mpl::vector6 >&, const scitbx::af::const_ref&, const scitbx::af::const_ref&, const cctbx::sgtbx::space_group&, const bool&, const cctbx::uctbx::unit_cell&>; NArgs = boost::mpl::size >&, const scitbx::af::const_ref&, const scitbx::af::const_ref&, const cctbx::sgtbx::space_group&, const bool&, const cctbx::uctbx::unit_cell&> >; keyword_range = std::pair]’ 310 | , detail::make_keyword_range_constructor( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 311 | policies | ~~~~~~~~ 312 | , keywords_ | ~~~~~~~~~~~ 313 | , (typename ClassT::metadata::holder*)0 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 314 | ) | ~ /usr/include/boost/python/init.hpp:377:31: required from ‘static void boost::python::detail::define_class_init_helper<0>::apply(ClassT&, const CallPoliciesT&, const Signature&, NArgs, const char*, const boost::python::detail::keyword_range&) [with ClassT = boost::python::class_ >; CallPoliciesT = boost::python::default_call_policies; Signature = boost::mpl::vector6 >&, const scitbx::af::const_ref&, const scitbx::af::const_ref&, const cctbx::sgtbx::space_group&, const bool&, const cctbx::uctbx::unit_cell&>; NArgs = boost::mpl::size >&, const scitbx::af::const_ref&, const scitbx::af::const_ref&, const cctbx::sgtbx::space_group&, const bool&, const cctbx::uctbx::unit_cell&> >; boost::python::detail::keyword_range = std::pair]’ 377 | detail::def_init_aux(cl, args, NArgs(), policies, doc, keywords); | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/boost/python/init.hpp:149:67: required from ‘void boost::python::init_base::visit(classT&) const [with classT = boost::python::class_ >; DerivedT = boost::python::init >&, const scitbx::af::const_ref&, const scitbx::af::const_ref&, const cctbx::sgtbx::space_group&, const bool&, const cctbx::uctbx::unit_cell&>]’ 149 | detail::define_class_init_helper::apply( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 150 | cl | ~~ 151 | , derived().call_policies() | ~~~~~~~~~~~~~~~~~~~~~~~~~~~ 152 | , signature() | ~~~~~~~~~~~~~ 153 | , n_arguments() | ~~~~~~~~~~~~~~~ 154 | , derived().doc_string() | ~~~~~~~~~~~~~~~~~~~~~~~~ 155 | , derived().keywords()); | ~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/boost/python/def_visitor.hpp:31:34: required from ‘static void boost::python::def_visitor_access::visit(const V&, classT&) [with V = boost::python::def_visitor >&, const scitbx::af::const_ref&, const scitbx::af::const_ref&, const cctbx::sgtbx::space_group&, const bool&, const cctbx::uctbx::unit_cell&> >; classT = boost::python::class_ >]’ 31 | v.derived_visitor().visit(c); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /usr/include/boost/python/def_visitor.hpp:67:34: required from ‘void boost::python::def_visitor::visit(classT&) const [with classT = boost::python::class_ >; DerivedVisitor = boost::python::init >&, const scitbx::af::const_ref&, const scitbx::af::const_ref&, const cctbx::sgtbx::space_group&, const bool&, const cctbx::uctbx::unit_cell&>]’ 67 | def_visitor_access::visit(*this, c); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /usr/include/boost/python/class.hpp:221:22: required from ‘boost::python::class_::self& boost::python::class_::def(const boost::python::def_visitor&) [with Derived = boost::python::init >&, const scitbx::af::const_ref&, const scitbx::af::const_ref&, const cctbx::sgtbx::space_group&, const bool&, const cctbx::uctbx::unit_cell&>; W = cctbx::xray::grouped_data::merger; X1 = boost::python::detail::not_specified; X2 = boost::python::detail::not_specified; X3 = boost::python::detail::not_specified; self = boost::python::class_ >]’ 221 | visitor.visit(*this); | ~~~~~~~~~~~~~^~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/grouped_data.cpp:54:15: required from here 53 | class_("merger", no_init) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 54 | .def(init< scitbx::af::const_ref< cctbx::miller::index<> > const&, | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 | scitbx::af::const_ref< double > const&, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 | scitbx::af::const_ref< double > const&, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 57 | sgtbx::space_group const&, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 58 | bool const&, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 59 | cctbx::uctbx::unit_cell const& | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 60 | > | ~ 61 | (( arg("hkl_obs"), | ~~~~~~~~~~~~~~~~~~ 62 | arg("i_obs"), | ~~~~~~~~~~~~~ 63 | arg("s_obs"), | ~~~~~~~~~~~~~ 64 | arg("space_group"), | ~~~~~~~~~~~~~~~~~~~ 65 | arg("anomalous_flag"), | ~~~~~~~~~~~~~~~~~~~~~~ 66 | arg("unit_cell") | ~~~~~~~~~~~~~~~~ 67 | ))) | ~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/grouped_data.h:151:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 151 | for (int ii=0;ii::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 167 | for (int ii=0; ii::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here 203 | new tensor_rank_3_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here 214 | new tensor_rank_4_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scatterer.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/parameter_map.cpp:10: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here 203 | new tensor_rank_3_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here 214 | new tensor_rank_4_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/parameter_map.cpp:9: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/parameter_map.h: In instantiation of ‘void cctbx::xray::parameter_map::init_scatterer_part(const scitbx::af::const_ref&) [with XRayScattererType = cctbx::xray::scatterer<>]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/parameter_map.h:54:7: required from ‘cctbx::xray::parameter_map::parameter_map(const scitbx::af::const_ref&) [with XRayScattererType = cctbx::xray::scatterer<>]’ 54 | init_scatterer_part(scatterers); | ^~~~~~~~~~~~~~~~~~~ /usr/include/boost/python/object/value_holder.hpp:131:11: required from ‘boost::python::objects::value_holder::value_holder(PyObject*, A0) [with A0 = boost::python::objects::reference_to_value, scitbx::af::trivial_accessor>&>; Value = cctbx::xray::parameter_map >; PyObject = _object]’ 131 | PyObject* self BOOST_PP_COMMA_IF(N) BOOST_PP_ENUM_BINARY_PARAMS_Z(1, N, A, a)) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 132 | : m_held( | ~~~~~~~~~ 133 | BOOST_PP_REPEAT_1ST(N, BOOST_PYTHON_UNFORWARD_LOCAL, nil) | ~ /usr/include/boost/python/object/make_holder.hpp:95:18: required from ‘static void boost::python::objects::make_holder<1>::apply::execute(PyObject*, t0) [with Holder = boost::python::objects::value_holder > >; ArgList = boost::mpl::vector1, scitbx::af::trivial_accessor>&>; PyObject = _object; t0 = const scitbx::af::const_ref, scitbx::af::trivial_accessor>&]’ 95 | try { | ~^ 96 | (new (memory) Holder( | ~~~~~~~~~~~~~~~~~~~~~ /usr/include/boost/python/detail/make_keyword_range_fn.hpp:63:47: required from ‘boost::python::api::object boost::python::detail::make_keyword_range_constructor(const CallPolicies&, const keyword_range&, Holder*, ArgList*, Arity*) [with ArgList = boost::mpl::vector1, scitbx::af::trivial_accessor>&>; Arity = boost::mpl::size, scitbx::af::trivial_accessor>&> >; Holder = boost::python::objects::value_holder > >; CallPolicies = boost::python::default_call_policies; keyword_range = std::pair]’ 63 | return detail::make_keyword_range_function( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 64 | objects::make_holder | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 65 | ::template apply::execute | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 66 | , policies | ~~~~~~~~~~ 67 | , kw); | ~~~~~ /usr/include/boost/python/init.hpp:310:66: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /usr/include/boost/python/init.hpp:149:67: required from ‘void boost::python::init_base::visit(classT&) const [with classT = boost::python::class_ >, boost::python::detail::not_specified, boost::python::detail::not_specified, boost::python::detail::not_specified>; DerivedT = boost::python::init, scitbx::af::trivial_accessor>&, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_>]’ 149 | detail::define_class_init_helper::apply( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 150 | cl | ~~ 151 | , derived().call_policies() | ~~~~~~~~~~~~~~~~~~~~~~~~~~~ 152 | , signature() | ~~~~~~~~~~~~~ 153 | , n_arguments() | ~~~~~~~~~~~~~~~ 154 | , derived().doc_string() | ~~~~~~~~~~~~~~~~~~~~~~~~ 155 | , derived().keywords()); | ~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/boost/python/def_visitor.hpp:31:34: required from ‘static void boost::python::def_visitor_access::visit(const V&, classT&) [with V = boost::python::def_visitor, scitbx::af::trivial_accessor>&, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_> >; classT = boost::python::class_ >, boost::python::detail::not_specified, boost::python::detail::not_specified, boost::python::detail::not_specified>]’ 31 | v.derived_visitor().visit(c); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /usr/include/boost/python/def_visitor.hpp:67:34: required from ‘void boost::python::def_visitor::visit(classT&) const [with classT = boost::python::class_ >, boost::python::detail::not_specified, boost::python::detail::not_specified, boost::python::detail::not_specified>; DerivedVisitor = boost::python::init, scitbx::af::trivial_accessor>&, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_>]’ 67 | def_visitor_access::visit(*this, c); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /usr/include/boost/python/class.hpp:221:22: required from ‘boost::python::class_::self& boost::python::class_::def(const boost::python::def_visitor&) [with Derived = boost::python::init, scitbx::af::trivial_accessor>&, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_>; W = cctbx::xray::parameter_map >; X1 = boost::python::detail::not_specified; X2 = boost::python::detail::not_specified; X3 = boost::python::detail::not_specified; self = boost::python::class_ >, boost::python::detail::not_specified, boost::python::detail::not_specified, boost::python::detail::not_specified>]’ 221 | visitor.visit(*this); | ~~~~~~~~~~~~~^~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/parameter_map.cpp:46:11: required from ‘static void cctbx::xray::boost_python::parameter_map_wrapper::wrap(const char*) [with XRayScattererType = cctbx::xray::scatterer<>]’ 45 | class_("parameter_map", no_init) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 46 | .def(init const &>(( | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 47 | arg("scatterers")))) | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/parameter_map.cpp:60:50: required from here 60 | parameter_map_wrapper >::wrap("parameter_map"); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/parameter_map.h:61:28: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref, scitbx::af::trivial_accessor>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 61 | for(int i_sc=0; i_sc < scatterers.size(); ++i_sc) { | ~~~~~^~~~~~~~~~~~~~~~~~~ g++ -o cctbx/xray/boost_python/sampling_base.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/sampling_base.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/xray/boost_python/scatterer.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/scatterer.cpp In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scatterer.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scattering_type_registry.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/sampling_base.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/sampled_model_density.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/sampled_model_density.cpp:3: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here 203 | new tensor_rank_3_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here 214 | new tensor_rank_4_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/uctbx.h:11, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/change_of_basis_op.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tr_group.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/space_group.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_constraints.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:4: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small_plain.h: In instantiation of ‘scitbx::af::small_plain::small_plain(const OtherElementType*, const OtherElementType*) [with OtherElementType = float; ElementType = double; long unsigned int N = 10]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small.h:50:33: required from ‘scitbx::af::small::small(const OtherElementType*, const OtherElementType*) [with OtherElementType = float; ElementType = double; long unsigned int N = 10]’ 50 | : base_class(first, last) | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/eltbx/xray_scattering.h:155:11: required from ‘cctbx::eltbx::xray_scattering::gaussian cctbx::eltbx::xray_scattering::base::fetch() const [with long unsigned int N = 4]’ 155 | small_t(entry_->a, entry_->a+N), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scattering_type_registry.h:192:40: required from here 191 | ugs[ui] = eltbx::xray_scattering::it1992( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 192 | pair->first, exact).fetch(); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small_plain.h:69:15: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘long int’ [-Wsign-compare] 69 | if (N < last - first) throw_range_error(); | ~~^~~~~~~~~~~~~~ g++ -o cctbx/xray/boost_python/scattering_type_registry.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/scattering_type_registry.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/xray/boost_python/sigmaa.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/sigmaa.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scatterer.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scattering_type_registry.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/sampling_base.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/sampling_base.cpp:3: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here 203 | new tensor_rank_3_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here 214 | new tensor_rank_4_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/uctbx.h:11, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/change_of_basis_op.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tr_group.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/space_group.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_constraints.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:4: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small_plain.h: In instantiation of ‘scitbx::af::small_plain::small_plain(const OtherElementType*, const OtherElementType*) [with OtherElementType = float; ElementType = double; long unsigned int N = 10]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small.h:50:33: required from ‘scitbx::af::small::small(const OtherElementType*, const OtherElementType*) [with OtherElementType = float; ElementType = double; long unsigned int N = 10]’ 50 | : base_class(first, last) | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/eltbx/xray_scattering.h:155:11: required from ‘cctbx::eltbx::xray_scattering::gaussian cctbx::eltbx::xray_scattering::base::fetch() const [with long unsigned int N = 4]’ 155 | small_t(entry_->a, entry_->a+N), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scattering_type_registry.h:192:40: required from here 191 | ugs[ui] = eltbx::xray_scattering::it1992( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 192 | pair->first, exact).fetch(); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small_plain.h:69:15: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘long int’ [-Wsign-compare] 69 | if (N < last - first) throw_range_error(); | ~~^~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scatterer.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scatterer_utils.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/scatterer.cpp:3: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i::set(const scitbx::af::ref&, float, bool) [with ScattererType = cctbx::xray::scatterer<>; TableType = cctbx::eltbx::henke::table]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/scatterer.cpp:349:54: required from here 349 | inelastic_form_factors::set, | ^~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scatterer_utils.h:426:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 426 | for (int i=0; i < scatterers.size(); ++i) { | ~~^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scatterer_utils.h: In instantiation of ‘static void cctbx::xray::inelastic_form_factors::set(const scitbx::af::ref&, float, bool) [with ScattererType = cctbx::xray::scatterer<>; TableType = cctbx::eltbx::sasaki::table]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/scatterer.cpp:353:55: required from here 353 | inelastic_form_factors::set, | ^~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scatterer_utils.h:426:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 426 | for (int i=0; i < scatterers.size(); ++i) { | ~~^~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:6: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here 203 | new tensor_rank_3_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here 214 | new tensor_rank_4_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scatterer.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/scatterer_flags.cpp:7: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here 203 | new tensor_rank_3_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here 214 | new tensor_rank_4_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/assert.hpp:64, from /usr/include/boost/smart_ptr/shared_array.hpp:21, from /usr/include/boost/shared_array.hpp:17, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensor_rank_2.h:9, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:5: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = cctbx::xray::scatterer_flags; GetitemReturnValuePolicy = boost::python::return_internal_reference<>; std::string = std::__cxx11::basic_string]’ 130 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 131 | w_t, | ~~~~ 132 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/scatterer_flags.cpp:142:44: required from here 140 | class_ wrapper = scitbx::af::boost_python::shared_wrapper< | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 141 | scatterer_flags, | ~~~~~~~~~~~~~~~~ 142 | return_internal_reference<> >::wrap("shared_scatterer_flags"); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scatterer.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scattering_type_registry.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/scattering_type_registry.cpp:3: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 49 | std::auto_ptr | ^~~~~~~~ In file included from /usr/include/c++/15/memory:80, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/detail/misc.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny_plain.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/vec3.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/mat3.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/sym_mat3.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scatterer_flags.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scatterer.h:4: /usr/include/c++/15/bits/unique_ptr.h:58:28: note: declared here 58 | template class auto_ptr; | ^~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/scattering_type_registry.cpp: In static member function ‘static std::auto_ptr cctbx::xray::boost_python::{anonymous}::scattering_type_registry_wrappers::constructor_for_pickle(const boost::python::dict&, const boost::python::list&, const cctbx::xray::scattering_type_registry::unique_counts_t&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/scattering_type_registry.cpp:55:12: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 55 | std::auto_ptr self(new w_t); | ^~~~~~~~ /usr/include/c++/15/bits/unique_ptr.h:58:28: note: declared here 58 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:6: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here 203 | new tensor_rank_3_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here 214 | new tensor_rank_4_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/uctbx.h:11, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/change_of_basis_op.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tr_group.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/space_group.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_constraints.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:4: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small_plain.h: In instantiation of ‘scitbx::af::small_plain::small_plain(const OtherElementType*, const OtherElementType*) [with OtherElementType = float; ElementType = double; long unsigned int N = 10]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small.h:50:33: required from ‘scitbx::af::small::small(const OtherElementType*, const OtherElementType*) [with OtherElementType = float; ElementType = double; long unsigned int N = 10]’ 50 | : base_class(first, last) | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/eltbx/xray_scattering.h:155:11: required from ‘cctbx::eltbx::xray_scattering::gaussian cctbx::eltbx::xray_scattering::base::fetch() const [with long unsigned int N = 4]’ 155 | small_t(entry_->a, entry_->a+N), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scattering_type_registry.h:192:40: required from here 191 | ugs[ui] = eltbx::xray_scattering::it1992( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 192 | pair->first, exact).fetch(); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small_plain.h:69:15: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘long int’ [-Wsign-compare] 69 | if (N < last - first) throw_range_error(); | ~~^~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scatterer.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/sigmaa.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/sigmaa.cpp:8: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here 203 | new tensor_rank_3_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here 214 | new tensor_rank_4_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ g++ -o cctbx/xray/boost_python/structure_factors_direct.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/structure_factors_direct.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/xray/boost_python/structure_factors_simple.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/structure_factors_simple.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/xray/boost_python/targets.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/targets.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scatterer.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scattering_type_registry.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/structure_factors_direct.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/structure_factors_direct.cpp:3: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here 203 | new tensor_rank_3_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here 214 | new tensor_rank_4_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/uctbx.h:11, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/change_of_basis_op.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tr_group.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/space_group.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_constraints.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:4: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small_plain.h: In instantiation of ‘scitbx::af::small_plain::small_plain(const OtherElementType*, const OtherElementType*) [with OtherElementType = float; ElementType = double; long unsigned int N = 10]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small.h:50:33: required from ‘scitbx::af::small::small(const OtherElementType*, const OtherElementType*) [with OtherElementType = float; ElementType = double; long unsigned int N = 10]’ 50 | : base_class(first, last) | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/eltbx/xray_scattering.h:155:11: required from ‘cctbx::eltbx::xray_scattering::gaussian cctbx::eltbx::xray_scattering::base::fetch() const [with long unsigned int N = 4]’ 155 | small_t(entry_->a, entry_->a+N), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scattering_type_registry.h:192:40: required from here 191 | ugs[ui] = eltbx::xray_scattering::it1992( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 192 | pair->first, exact).fetch(); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small_plain.h:69:15: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘long int’ [-Wsign-compare] 69 | if (N < last - first) throw_range_error(); | ~~^~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scatterer.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scattering_type_registry.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/structure_factors_simple.h:12, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/structure_factors_simple.cpp:3: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here 203 | new tensor_rank_3_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here 214 | new tensor_rank_4_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/uctbx.h:11, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/change_of_basis_op.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tr_group.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/space_group.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_constraints.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:4: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small_plain.h: In instantiation of ‘scitbx::af::small_plain::small_plain(const OtherElementType*, const OtherElementType*) [with OtherElementType = float; ElementType = double; long unsigned int N = 10]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small.h:50:33: required from ‘scitbx::af::small::small(const OtherElementType*, const OtherElementType*) [with OtherElementType = float; ElementType = double; long unsigned int N = 10]’ 50 | : base_class(first, last) | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/eltbx/xray_scattering.h:155:11: required from ‘cctbx::eltbx::xray_scattering::gaussian cctbx::eltbx::xray_scattering::base::fetch() const [with long unsigned int N = 4]’ 155 | small_t(entry_->a, entry_->a+N), | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scattering_type_registry.h:192:40: required from here 191 | ugs[ui] = eltbx::xray_scattering::it1992( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 192 | pair->first, exact).fetch(); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small_plain.h:69:15: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘long int’ [-Wsign-compare] 69 | if (N < last - first) throw_range_error(); | ~~^~~~~~~~~~~~~~ g++ -o cctbx/xray/boost_python/twin_components.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/twin_components.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/xray/boost_python/twin_targets.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/twin_targets.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/xray/boost_python/xray_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/xray_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/xray/observations/boost_python/observations.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/observations/boost_python/observations.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/xray/observations/boost_python/observations_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/observations/boost_python/observations_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/xray/targets/shelxl_wght_ls_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/targets/shelxl_wght_ls_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /usr/include/boost/assert.hpp:64, from /usr/include/boost/smart_ptr/shared_ptr.hpp:23, from /usr/include/boost/shared_ptr.hpp:17, from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, from /usr/include/boost/python/converter/arg_to_python.hpp:15, from /usr/include/boost/python/call.hpp:15, from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object/class.hpp:9, from /usr/include/boost/python/class.hpp:13, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/stl/vector_wrapper.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/twin_components.cpp:6: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared*>; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared*>; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::shared*>; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:300:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_variable_capacity::tuple_mapping_variable_capacity() [with ContainerType = scitbx::af::shared*>]’ 300 | tuple_mapping< | ^~~~~~~~~~~~~~ 301 | ContainerType, | ~~~~~~~~~~~~~~ 302 | variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/twin_components.cpp:91:77: required from here 91 | tuple_mapping_variable_capacity *> >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared*>; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared*>; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::shared*>; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:300:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_variable_capacity::tuple_mapping_variable_capacity() [with ContainerType = scitbx::af::shared*>]’ 300 | tuple_mapping< | ^~~~~~~~~~~~~~ 301 | ContainerType, | ~~~~~~~~~~~~~~ 302 | variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/twin_components.cpp:92:78: required from here 92 | tuple_mapping_variable_capacity *> >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/match_indices.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/lookup_utils.h:11, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:14, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/twin_targets.cpp:3: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/match.h:16:34: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 16 | struct additive_sigma : std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/15/string:51, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/istream:42, from /usr/include/c++/15/sstream:42, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:31, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:4: /usr/include/c++/15/bits/stl_function.h:134:12: note: declared here 134 | struct binary_function | ^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/match.h:18:20: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 18 | typedef std::binary_function base_type; | ^~~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:134:12: note: declared here 134 | struct binary_function | ^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/match.h:31:27: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 31 | struct average : std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:134:12: note: declared here 134 | struct binary_function | ^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/match.h:33:20: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 33 | typedef std::binary_function base_type; | ^~~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_function.h:134:12: note: declared here 134 | struct binary_function | ^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h: In instantiation of ‘scitbx::af::shared cctbx::xray::twin_targets::twin_completion::get_free_model_selection(scitbx::af::const_ref >, const scitbx::af::const_ref&) [with FloatType = double]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/twin_targets.cpp:42:50: required from here 42 | .def("get_free_model_selection", &w_t::get_free_model_selection) | ^~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:128:31: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 128 | CCTBX_ASSERT( index < flags.size() ); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:128:11: note: in expansion of macro ‘CCTBX_ASSERT’ 128 | CCTBX_ASSERT( index < flags.size() ); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h: In instantiation of ‘FloatType cctbx::xray::twin_targets::hemihedral_r_values::r_intensity_abs(const scitbx::af::const_ref&, const scitbx::af::const_ref >&, const scitbx::af::const_ref&, const FloatType&) [with FloatType = double]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/twin_targets.cpp:182:39: required from here 182 | .def("r_intensity_abs", &w_t::r_intensity_abs, | ^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:559:31: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 559 | CCTBX_ASSERT( obs_size_ == i_obs.size() ); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:559:6: note: in expansion of macro ‘CCTBX_ASSERT’ 559 | CCTBX_ASSERT( obs_size_ == i_obs.size() ); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:560:31: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘scitbx::af::const_ref >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 560 | CCTBX_ASSERT( calc_size_ == f_model.size() ); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:560:6: note: in expansion of macro ‘CCTBX_ASSERT’ 560 | CCTBX_ASSERT( calc_size_ == f_model.size() ); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:561:31: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 561 | CCTBX_ASSERT( (obs_size_ == selection.size()) || (selection.size()==0) ); | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:561:6: note: in expansion of macro ‘CCTBX_ASSERT’ 561 | CCTBX_ASSERT( (obs_size_ == selection.size()) || (selection.size()==0) ); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h: In instantiation of ‘FloatType cctbx::xray::twin_targets::hemihedral_r_values::r_intensity_sq(const scitbx::af::const_ref&, const scitbx::af::const_ref >&, const scitbx::af::const_ref&, const FloatType&) [with FloatType = double]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/twin_targets.cpp:189:38: required from here 189 | .def("r_intensity_sq", &w_t::r_intensity_sq, | ^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:604:30: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 604 | CCTBX_ASSERT( obs_size_ == i_obs.size() ); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:604:6: note: in expansion of macro ‘CCTBX_ASSERT’ 604 | CCTBX_ASSERT( obs_size_ == i_obs.size() ); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:605:31: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘scitbx::af::const_ref >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 605 | CCTBX_ASSERT( calc_size_ == f_model.size() ); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:605:6: note: in expansion of macro ‘CCTBX_ASSERT’ 605 | CCTBX_ASSERT( calc_size_ == f_model.size() ); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:606:31: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 606 | CCTBX_ASSERT( (obs_size_ == selection.size()) || (selection.size()==0) ); | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:606:6: note: in expansion of macro ‘CCTBX_ASSERT’ 606 | CCTBX_ASSERT( (obs_size_ == selection.size()) || (selection.size()==0) ); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h: In instantiation of ‘FloatType cctbx::xray::twin_targets::hemihedral_r_values::r_amplitude_abs(const scitbx::af::const_ref&, const scitbx::af::const_ref >&, const scitbx::af::const_ref&, const FloatType&) [with FloatType = double]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/twin_targets.cpp:196:39: required from here 196 | .def("r_amplitude_abs", &w_t::r_amplitude_abs, | ^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:649:30: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 649 | CCTBX_ASSERT( obs_size_ == f_obs.size() ); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:649:6: note: in expansion of macro ‘CCTBX_ASSERT’ 649 | CCTBX_ASSERT( obs_size_ == f_obs.size() ); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:650:31: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘scitbx::af::const_ref >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 650 | CCTBX_ASSERT( calc_size_ == f_model.size() ); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:650:6: note: in expansion of macro ‘CCTBX_ASSERT’ 650 | CCTBX_ASSERT( calc_size_ == f_model.size() ); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:651:31: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 651 | CCTBX_ASSERT( (obs_size_ == selection.size()) || (selection.size()==0) ); | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:651:6: note: in expansion of macro ‘CCTBX_ASSERT’ 651 | CCTBX_ASSERT( (obs_size_ == selection.size()) || (selection.size()==0) ); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h: In instantiation of ‘FloatType cctbx::xray::twin_targets::hemihedral_r_values::r_amplitude_sq(const scitbx::af::const_ref&, const scitbx::af::const_ref >&, const scitbx::af::const_ref&, const FloatType&) [with FloatType = double]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/twin_targets.cpp:203:38: required from here 203 | .def("r_amplitude_sq", &w_t::r_amplitude_sq, | ^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:697:30: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 697 | CCTBX_ASSERT( obs_size_ == f_obs.size() ); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:697:6: note: in expansion of macro ‘CCTBX_ASSERT’ 697 | CCTBX_ASSERT( obs_size_ == f_obs.size() ); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:698:31: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘scitbx::af::const_ref >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 698 | CCTBX_ASSERT( calc_size_ == f_model.size() ); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:698:6: note: in expansion of macro ‘CCTBX_ASSERT’ 698 | CCTBX_ASSERT( calc_size_ == f_model.size() ); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:699:31: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 699 | CCTBX_ASSERT( (obs_size_ == selection.size()) || (selection.size()==0) ); | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:699:6: note: in expansion of macro ‘CCTBX_ASSERT’ 699 | CCTBX_ASSERT( (obs_size_ == selection.size()) || (selection.size()==0) ); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h: In instantiation of ‘scitbx::af::tiny, 2> cctbx::xray::twin_targets::hemihedral_detwinner::detwin_with_model_data(const scitbx::af::const_ref&, const scitbx::af::const_ref&, const scitbx::af::const_ref >&, const FloatType&) const [with FloatType = double]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/twin_targets.cpp:263:45: required from here 263 | result = self.detwin_with_model_data(i_obs,sig_obs,f_model,twin_fraction); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:997:45: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘long int’ [-Wsign-compare] 997 | CCTBX_ASSERT(i_obs.size() > loc_twin_obs); // XXX trap for long standing seg. fault bug /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:997:19: note: in expansion of macro ‘CCTBX_ASSERT’ 997 | CCTBX_ASSERT(i_obs.size() > loc_twin_obs); // XXX trap for long standing seg. fault bug | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:1003:47: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘long int’ [-Wsign-compare] 1003 | CCTBX_ASSERT(sig_obs.size() > loc_twin_obs); // XXX trap for long standing seg. fault bug /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:1003:19: note: in expansion of macro ‘CCTBX_ASSERT’ 1003 | CCTBX_ASSERT(sig_obs.size() > loc_twin_obs); // XXX trap for long standing seg. fault bug | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:1006:41: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref >::size_type’ {aka ‘long unsigned int’} and ‘long int’ [-Wsign-compare] 1006 | CCTBX_ASSERT(f_model.size() > loc_calc); // XXX trap for long standing seg. fault bug /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:1006:13: note: in expansion of macro ‘CCTBX_ASSERT’ 1006 | CCTBX_ASSERT(f_model.size() > loc_calc); // XXX trap for long standing seg. fault bug | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:1010:47: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref >::size_type’ {aka ‘long unsigned int’} and ‘long int’ [-Wsign-compare] 1010 | CCTBX_ASSERT(f_model.size() > loc_twin_calc); // XXX trap for long standing seg. fault bug /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:1010:19: note: in expansion of macro ‘CCTBX_ASSERT’ 1010 | CCTBX_ASSERT(f_model.size() > loc_twin_calc); // XXX trap for long standing seg. fault bug | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h: In instantiation of ‘scitbx::af::tiny, 2> cctbx::xray::twin_targets::hemihedral_detwinner::detwin_with_model_data(const scitbx::af::const_ref&, const scitbx::af::const_ref&, const scitbx::af::const_ref&, const FloatType&) const [with FloatType = double]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/twin_targets.cpp:275:45: required from here 275 | result = self.detwin_with_model_data(i_obs,sig_obs,f_model,twin_fraction); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:936:43: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘long int’ [-Wsign-compare] 936 | CCTBX_ASSERT(i_obs.size() > loc_twin_obs); // XXX trap for long standing seg. fault bug /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:936:17: note: in expansion of macro ‘CCTBX_ASSERT’ 936 | CCTBX_ASSERT(i_obs.size() > loc_twin_obs); // XXX trap for long standing seg. fault bug | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:942:47: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘long int’ [-Wsign-compare] 942 | CCTBX_ASSERT(sig_obs.size() > loc_twin_obs); // XXX trap for long standing seg. fault bug /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:942:19: note: in expansion of macro ‘CCTBX_ASSERT’ 942 | CCTBX_ASSERT(sig_obs.size() > loc_twin_obs); // XXX trap for long standing seg. fault bug | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:945:45: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘long int’ [-Wsign-compare] 945 | CCTBX_ASSERT(f_model.size() > loc_calc); // XXX trap for long standing seg. fault bug /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:945:17: note: in expansion of macro ‘CCTBX_ASSERT’ 945 | CCTBX_ASSERT(f_model.size() > loc_calc); // XXX trap for long standing seg. fault bug | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:948:45: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘long int’ [-Wsign-compare] 948 | CCTBX_ASSERT(f_model.size() > loc_twin_calc); // XXX trap for long standing seg. fault bug /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:948:17: note: in expansion of macro ‘CCTBX_ASSERT’ 948 | CCTBX_ASSERT(f_model.size() > loc_twin_calc); // XXX trap for long standing seg. fault bug | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h: In instantiation of ‘cctbx::xray::twin_targets::hemihedral_r_values::hemihedral_r_values(const scitbx::af::const_ref >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&, const scitbx::mat3&) [with FloatType = double]’: /usr/include/boost/python/object/value_holder.hpp:131:11: required from ‘boost::python::objects::value_holder::value_holder(PyObject*, A0, A1, A2, A3, A4) [with A0 = boost::python::objects::reference_to_value >&>; A1 = boost::python::objects::reference_to_value >&>; A2 = boost::python::objects::reference_to_value; A3 = boost::python::objects::reference_to_value; A4 = boost::python::objects::reference_to_value&>; Value = cctbx::xray::twin_targets::hemihedral_r_values; PyObject = _object]’ 131 | PyObject* self BOOST_PP_COMMA_IF(N) BOOST_PP_ENUM_BINARY_PARAMS_Z(1, N, A, a)) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 132 | : m_held( | ~~~~~~~~~ 133 | BOOST_PP_REPEAT_1ST(N, BOOST_PYTHON_UNFORWARD_LOCAL, nil) | ~ /usr/include/boost/python/object/make_holder.hpp:95:18: required from ‘static void boost::python::objects::make_holder<5>::apply::execute(PyObject*, t0, t1, t2, t3, t4) [with Holder = boost::python::objects::value_holder >; ArgList = boost::mpl::vector5 >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&, const scitbx::mat3&>; PyObject = _object; t0 = const scitbx::af::const_ref >&; t1 = const scitbx::af::const_ref >&; t2 = const cctbx::sgtbx::space_group&; t3 = const bool&; t4 = const scitbx::mat3&]’ 95 | try { | ~^ 96 | (new (memory) Holder( | ~~~~~~~~~~~~~~~~~~~~~ /usr/include/boost/python/detail/make_keyword_range_fn.hpp:63:47: required from ‘boost::python::api::object boost::python::detail::make_keyword_range_constructor(const CallPolicies&, const keyword_range&, Holder*, ArgList*, Arity*) [with ArgList = boost::mpl::vector5 >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&, const scitbx::mat3&>; Arity = boost::mpl::size >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&, const scitbx::mat3&> >; Holder = boost::python::objects::value_holder >; CallPolicies = boost::python::default_call_policies; keyword_range = std::pair]’ 63 | return detail::make_keyword_range_function( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 64 | objects::make_holder | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 65 | ::template apply::execute | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 66 | , policies | ~~~~~~~~~~ 67 | , kw); | ~~~~~ /usr/include/boost/python/init.hpp:310:66: required from ‘void boost::python::detail::def_init_aux(ClassT&, const Signature&, NArgs, const CallPoliciesT&, const char*, const keyword_range&) [with ClassT = boost::python::class_ >; CallPoliciesT = boost::python::default_call_policies; Signature = boost::mpl::vector5 >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&, const scitbx::mat3&>; NArgs = boost::mpl::size >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&, const scitbx::mat3&> >; keyword_range = std::pair]’ 310 | , detail::make_keyword_range_constructor( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 311 | policies | ~~~~~~~~ 312 | , keywords_ | ~~~~~~~~~~~ 313 | , (typename ClassT::metadata::holder*)0 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 314 | ) | ~ /usr/include/boost/python/init.hpp:377:31: required from ‘static void boost::python::detail::define_class_init_helper<0>::apply(ClassT&, const CallPoliciesT&, const Signature&, NArgs, const char*, const boost::python::detail::keyword_range&) [with ClassT = boost::python::class_ >; CallPoliciesT = boost::python::default_call_policies; Signature = boost::mpl::vector5 >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&, const scitbx::mat3&>; NArgs = boost::mpl::size >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&, const scitbx::mat3&> >; boost::python::detail::keyword_range = std::pair]’ 377 | detail::def_init_aux(cl, args, NArgs(), policies, doc, keywords); | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/boost/python/init.hpp:149:67: required from ‘void boost::python::init_base::visit(classT&) const [with classT = boost::python::class_ >; DerivedT = boost::python::init >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&, const scitbx::mat3&>]’ 149 | detail::define_class_init_helper::apply( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 150 | cl | ~~ 151 | , derived().call_policies() | ~~~~~~~~~~~~~~~~~~~~~~~~~~~ 152 | , signature() | ~~~~~~~~~~~~~ 153 | , n_arguments() | ~~~~~~~~~~~~~~~ 154 | , derived().doc_string() | ~~~~~~~~~~~~~~~~~~~~~~~~ 155 | , derived().keywords()); | ~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/boost/python/def_visitor.hpp:31:34: required from ‘static void boost::python::def_visitor_access::visit(const V&, classT&) [with V = boost::python::def_visitor >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&, const scitbx::mat3&> >; classT = boost::python::class_ >]’ 31 | v.derived_visitor().visit(c); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /usr/include/boost/python/def_visitor.hpp:67:34: required from ‘void boost::python::def_visitor::visit(classT&) const [with classT = boost::python::class_ >; DerivedVisitor = boost::python::init >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&, const scitbx::mat3&>]’ 67 | def_visitor_access::visit(*this, c); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /usr/include/boost/python/class.hpp:221:22: required from ‘boost::python::class_::self& boost::python::class_::def(const boost::python::def_visitor&) [with Derived = boost::python::init >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&, const scitbx::mat3&>; W = cctbx::xray::twin_targets::hemihedral_r_values; X1 = boost::python::detail::not_specified; X2 = boost::python::detail::not_specified; X3 = boost::python::detail::not_specified; self = boost::python::class_ >]’ 221 | visitor.visit(*this); | ~~~~~~~~~~~~~^~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/twin_targets.cpp:169:13: required from here 168 | class_("hemihedral_r_values", no_init) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 169 | .def(init< | ~~~~^~~~~~ 170 | scitbx::af::const_ref< cctbx::miller::index<> > const&, // 1 obs indices | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 171 | scitbx::af::const_ref< cctbx::miller::index<> > const&, // 2 calc indices | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 172 | sgtbx::space_group const&, // 3 space group | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 173 | bool const&, // 4 anomalous flag | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 174 | scitbx::mat3 const& // 5 twin law | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 175 | > | ~ 176 | ((arg("hkl_obs"), | ~~~~~~~~~~~~~~~~~ 177 | arg("hkl_calc"), | ~~~~~~~~~~~~~~~~ 178 | arg("space_group"), | ~~~~~~~~~~~~~~~~~~~ 179 | arg("anomalous_flag"), | ~~~~~~~~~~~~~~~~~~~~~~ 180 | arg("twin_law") | ~~~~~~~~~~~~~~~ 181 | ))) | ~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:544:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘scitbx::af::const_ref >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 544 | for (long ii=0;ii::refine(const FloatType&) [with FloatType = double]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/quadrature.h:523:14: required from ‘scitbx::math::quadrature::gauss_legendre_engine::gauss_legendre_engine(const int&) [with FloatType = double]’ 523 | x = refine( start_guess ); | ^~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/twin_targets.h:1070:68: required from ‘cctbx::xray::twin_targets::single_twin_likelihood::single_twin_likelihood(const FloatType&, const FloatType&, const FloatType&, const FloatType&, const FloatType&, const FloatType&, const FloatType&, const FloatType&, const bool&, const bool&, const FloatType&, const FloatType&, const FloatType&, const int&) [with FloatType = double]’ 1070 | scitbx::math::quadrature::gauss_legendre_engine tmp_gle(n_quad_); | ^~~~~~~ /usr/include/boost/python/object/value_holder.hpp:131:11: required from ‘boost::python::objects::value_holder::value_holder(PyObject*, A0, A1, A2, A3, A4, A5, A6, A7, A8, A9, A10, A11, A12, A13) [with A0 = boost::python::objects::reference_to_value; A1 = boost::python::objects::reference_to_value; A2 = boost::python::objects::reference_to_value; A3 = boost::python::objects::reference_to_value; A4 = boost::python::objects::reference_to_value; A5 = boost::python::objects::reference_to_value; A6 = boost::python::objects::reference_to_value; A7 = boost::python::objects::reference_to_value; A8 = boost::python::objects::reference_to_value; A9 = boost::python::objects::reference_to_value; A10 = boost::python::objects::reference_to_value; A11 = boost::python::objects::reference_to_value; A12 = boost::python::objects::reference_to_value; A13 = boost::python::objects::reference_to_value; Value = cctbx::xray::twin_targets::single_twin_likelihood; PyObject = _object]’ 131 | PyObject* self BOOST_PP_COMMA_IF(N) BOOST_PP_ENUM_BINARY_PARAMS_Z(1, N, A, a)) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 132 | : m_held( | ~~~~~~~~~ 133 | BOOST_PP_REPEAT_1ST(N, BOOST_PYTHON_UNFORWARD_LOCAL, nil) | ~ /usr/include/boost/python/object/make_holder.hpp:95:18: required from ‘static void boost::python::objects::make_holder<14>::apply::execute(PyObject*, t0, t1, t2, t3, t4, t5, t6, t7, t8, t9, t10, t11, t12, t13) [with Holder = boost::python::objects::value_holder >; ArgList = boost::mpl::vector14; PyObject = _object; t0 = const double&; t1 = const double&; t2 = const double&; t3 = const double&; t4 = const double&; t5 = const double&; t6 = const double&; t7 = const double&; t8 = const bool&; t9 = const bool&; t10 = const double&; t11 = const double&; t12 = const double&; t13 = const int&]’ 95 | try { | ~^ 96 | (new (memory) Holder( | ~~~~~~~~~~~~~~~~~~~~~ /usr/include/boost/python/detail/make_keyword_range_fn.hpp:63:47: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /usr/include/boost/python/init.hpp:377:31: required from ‘static void boost::python::detail::define_class_init_helper<0>::apply(ClassT&, const CallPoliciesT&, const Signature&, NArgs, const char*, const boost::python::detail::keyword_range&) [with ClassT = boost::python::class_ >; CallPoliciesT = boost::python::default_call_policies; Signature = boost::mpl::vector14; NArgs = boost::mpl::size >; boost::python::detail::keyword_range = std::pair]’ 377 | detail::def_init_aux(cl, args, NArgs(), policies, doc, keywords); | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/boost/python/init.hpp:149:67: required from ‘void boost::python::init_base::visit(classT&) const [with classT = boost::python::class_ >; DerivedT = boost::python::init]’ 149 | detail::define_class_init_helper::apply( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 150 | cl | ~~ 151 | , derived().call_policies() | ~~~~~~~~~~~~~~~~~~~~~~~~~~~ 152 | , signature() | ~~~~~~~~~~~~~ 153 | , n_arguments() | ~~~~~~~~~~~~~~~ 154 | , derived().doc_string() | ~~~~~~~~~~~~~~~~~~~~~~~~ 155 | , derived().keywords()); | ~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/boost/python/def_visitor.hpp:31:34: required from ‘static void boost::python::def_visitor_access::visit(const V&, classT&) [with V = boost::python::def_visitor >; classT = boost::python::class_ >]’ 31 | v.derived_visitor().visit(c); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /usr/include/boost/python/def_visitor.hpp:67:34: required from ‘void boost::python::def_visitor::visit(classT&) const [with classT = boost::python::class_ >; DerivedVisitor = boost::python::init]’ 67 | def_visitor_access::visit(*this, c); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /usr/include/boost/python/class.hpp:221:22: required from ‘boost::python::class_::self& boost::python::class_::def(const boost::python::def_visitor&) [with Derived = boost::python::init; W = cctbx::xray::twin_targets::single_twin_likelihood; X1 = boost::python::detail::not_specified; X2 = boost::python::detail::not_specified; X3 = boost::python::detail::not_specified; self = boost::python::class_ >]’ 221 | visitor.visit(*this); | ~~~~~~~~~~~~~^~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/boost_python/twin_targets.cpp:343:14: required from here 342 | class_("single_twin_likelihood", no_init) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 343 | .def(init< | ~~~~^~~~~~ 344 | double const&, double const&, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 345 | double const&, double const&, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 346 | double const&, double const&, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 347 | double const&, double const&, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 348 | bool const&, bool const&, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 349 | double const&, double const&, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 350 | double const&, int const& | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 351 | > | ~ 352 | ((arg("i_obs1"), arg("s_obs1"), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 | arg("i_obs2"), arg("s_obs2"), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 354 | arg("f_calc1"), arg("f_calc2"), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 355 | arg("eps1"), arg("eps2"), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 356 | arg("centric1"),arg("centric2"), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 357 | arg("alpha"), arg("beta"), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 358 | arg("twin_fraction"), arg("n_quad") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 359 | )) | ~~ 360 | ) | ~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/quadrature.h:546:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 546 | for (int ii=0;ii >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 40 | if (pos < 0 || pos >= command_line_args.buffer.size()) { | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/utils/string_to_double_fmt.hpp:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/read.hpp:9: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/utils/string_to_double.hpp: In member function ‘void fem::utils::string_to_double::convert(fem::utils::simple_istream&, unsigned int, int)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/utils/string_to_double.hpp:115:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const unsigned int’ [-Wsign-compare] 115 | if (dexp <= ad_hoc_limits::max_digit_count) { | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/read.hpp: In member function ‘double fem::read_loop::read_fmt_double()’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/read.hpp:653:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 653 | if (iw+1 != ed.size()) { | ~~~~~^~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/variant.hpp:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/major_types.hpp:7: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/utils/equivalence.hpp: In member function ‘void fem::utils::equivalence::array_alignment::infer_diffs0_from_diff_matrix()’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/utils/equivalence.hpp:93:28: warning: comparison of integer expressions of different signedness: ‘const fem::ssize_t’ {aka ‘const long int’} and ‘fem::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 93 | if (c0e[0] == i0) { | ~~~~~~~^~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/major_types.hpp:8: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/write.hpp: In destructor ‘fem::write_loop::~write_loop()’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/write.hpp:704:24: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 704 | while (pos < internal_file_len) { | ~~~~^~~~~~~~~~~~~~~~~~~ g++ -o chiltbx/handle_test.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/chiltbx/handle_test.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o chiltbx/handle_test -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread chiltbx/handle_test.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread g++ -o cma_es/cma/cmaes.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cma_es/cma/cmaes.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cma_es/cma_es_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cma_es/cma_es_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o dxtbx/src/dxtbx/boost_python/compression.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/base/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx -I/usr/include/python3.13 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/compression.cc cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/compression.cc: In function ‘unsigned int dxtbx::boost_python::cbf_decompress(const char*, std::size_t, int*, std::size_t)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/compression.cc:124:50: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 124 | while ((j < packed_sz) && ((values - original) < values_sz)) { | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/compression.cc: In function ‘void dxtbx::boost_python::rod_TY5_TY6_decompress(int*, const char*, const char*, int, int, int)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/compression.cc:207:26: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] 207 | for (size_t iy = 0; iy < slow; iy++) { | ~~~^~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/compression.cc:228:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] 228 | for (int k = 0; k < nblock; k++) { | ~~^~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/compression.cc:254:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] 254 | for (int j = 0; j < nbit; j++) { | ~~^~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/compression.cc:261:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] 261 | for (int j = 0; j < BLOCKSIZE; j++) { | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/compression.cc:282:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] 282 | for (int i = 0; i < nrest; i++) { | ~~^~~~~~~ g++ -o dxtbx/src/dxtbx/boost_python/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/base/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx -I/usr/include/python3.13 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o dxtbx/src/dxtbx/boost_python/flumpy.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -DBUILD_CBF -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/base/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx -I/usr/include/python3.13 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o dxtbx/src/dxtbx/boost_python/imageset_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/base/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx -I/usr/include/python3.13 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o dxtbx/src/dxtbx/format/boost_python/cbf_read_buffer.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/base/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx -I/usr/include/python3.13 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/format/boost_python/cbf_read_buffer.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:31, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/ext.cpp:3: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/ext.cpp: In function ‘scitbx::af::flex_int dxtbx::boost_python::uncompress(const boost::python::api::object&, const int&, const int&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/ext.cpp:183:21: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 183 | DXTBX_ASSERT(nn == (slow * fast)); | ~~~^~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/ext.cpp:183:5: note: in expansion of macro ‘DXTBX_ASSERT’ 183 | DXTBX_ASSERT(nn == (slow * fast)); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/ext.cpp: In function ‘void dxtbx::boost_python::radial_average(scitbx::af::versa >&, scitbx::af::versa >&, const scitbx::vec2&, scitbx::af::shared, scitbx::af::shared, scitbx::af::shared, double, double, const scitbx::vec2&, const scitbx::vec2&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/ext.cpp:218:43: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] 218 | for (std::size_t y = upper_left[1]; y < lower_right[1]; y++) { /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/ext.cpp:219:45: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] 219 | for (std::size_t x = upper_left[0]; x < lower_right[0]; x++) { g++ -o dxtbx/src/dxtbx/format/boost_python/image_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/base/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx -I/usr/include/python3.13 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/format/boost_python/cbf_read_buffer.cpp:10:1: warning: ‘typedef’ was ignored in this declaration 10 | typedef struct cbf_handle_struct; | ^~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc: In instantiation of ‘pybind11::buffer_info get_buffer_specific(grid) [with T = bool; grid = scitbx::af::versa >]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:247:31: required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ 247 | return get_buffer_specific(obj); | ~~~~~~~~~~~~~~~~~~~^~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:254:36: required from here 254 | return get_buffer(obj.ptr()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:64:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 64 | for (int i = 0; i < flex.accessor().nd(); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:66:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 66 | for (int j = i + 1; j < flex.accessor().nd(); ++j) { | ~~^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc: In instantiation of ‘pybind11::buffer_info get_buffer_specific(grid) [with T = long unsigned int; grid = scitbx::af::versa >]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:247:31: required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ 247 | return get_buffer_specific(obj); | ~~~~~~~~~~~~~~~~~~~^~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ 249 | return get_buffer(ptr); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:254:36: required from here 254 | return get_buffer(obj.ptr()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:64:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 64 | for (int i = 0; i < flex.accessor().nd(); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:66:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 66 | for (int j = i + 1; j < flex.accessor().nd(); ++j) { | ~~^~~~~~~~~~~~~~~~~~~~~~ g++ -o dxtbx/src/dxtbx/format/boost_python/nexus_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/base/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx -I/usr/include/python3.13 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/format/boost_python/nexus_ext.cc cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc: In instantiation of ‘pybind11::buffer_info get_buffer_specific(grid) [with T = unsigned char; grid = scitbx::af::versa >]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: recursively required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ 249 | return get_buffer(ptr); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:254:36: required from here 254 | return get_buffer(obj.ptr()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:64:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 64 | for (int i = 0; i < flex.accessor().nd(); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:66:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 66 | for (int j = i + 1; j < flex.accessor().nd(); ++j) { | ~~^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc: In instantiation of ‘pybind11::buffer_info get_buffer_specific(grid) [with T = short unsigned int; grid = scitbx::af::versa >]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: recursively required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ 249 | return get_buffer(ptr); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:254:36: required from here 254 | return get_buffer(obj.ptr()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:64:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 64 | for (int i = 0; i < flex.accessor().nd(); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:66:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 66 | for (int j = i + 1; j < flex.accessor().nd(); ++j) { | ~~^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc: In instantiation of ‘pybind11::buffer_info get_buffer_specific(grid) [with T = unsigned int; grid = scitbx::af::versa >]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: recursively required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ 249 | return get_buffer(ptr); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:254:36: required from here 254 | return get_buffer(obj.ptr()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:64:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 64 | for (int i = 0; i < flex.accessor().nd(); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:66:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 66 | for (int j = i + 1; j < flex.accessor().nd(); ++j) { | ~~^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc: In instantiation of ‘pybind11::buffer_info get_buffer_specific(grid) [with T = int; grid = scitbx::af::versa >]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: recursively required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ 249 | return get_buffer(ptr); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:254:36: required from here 254 | return get_buffer(obj.ptr()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:64:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 64 | for (int i = 0; i < flex.accessor().nd(); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:66:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 66 | for (int j = i + 1; j < flex.accessor().nd(); ++j) { | ~~^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc: In instantiation of ‘pybind11::buffer_info get_buffer_specific(grid) [with T = long int; grid = scitbx::af::versa >]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: recursively required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ 249 | return get_buffer(ptr); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:254:36: required from here 254 | return get_buffer(obj.ptr()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:64:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 64 | for (int i = 0; i < flex.accessor().nd(); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:66:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 66 | for (int j = i + 1; j < flex.accessor().nd(); ++j) { | ~~^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc: In instantiation of ‘pybind11::buffer_info get_buffer_specific(grid) [with T = signed char; grid = scitbx::af::versa >]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: recursively required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ 249 | return get_buffer(ptr); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:254:36: required from here 254 | return get_buffer(obj.ptr()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:64:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 64 | for (int i = 0; i < flex.accessor().nd(); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:66:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 66 | for (int j = i + 1; j < flex.accessor().nd(); ++j) { | ~~^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc: In instantiation of ‘pybind11::buffer_info get_buffer_specific(grid) [with T = short int; grid = scitbx::af::versa >]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: recursively required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ 249 | return get_buffer(ptr); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:254:36: required from here 254 | return get_buffer(obj.ptr()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:64:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 64 | for (int i = 0; i < flex.accessor().nd(); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:66:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 66 | for (int j = i + 1; j < flex.accessor().nd(); ++j) { | ~~^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc: In instantiation of ‘pybind11::buffer_info get_buffer_specific(grid) [with T = float; grid = scitbx::af::versa >]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: recursively required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ 249 | return get_buffer(ptr); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:254:36: required from here 254 | return get_buffer(obj.ptr()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:64:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 64 | for (int i = 0; i < flex.accessor().nd(); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:66:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 66 | for (int j = i + 1; j < flex.accessor().nd(); ++j) { | ~~^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc: In instantiation of ‘pybind11::buffer_info get_buffer_specific(grid) [with T = double; grid = scitbx::af::versa >]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: recursively required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ 249 | return get_buffer(ptr); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:254:36: required from here 254 | return get_buffer(obj.ptr()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:64:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 64 | for (int i = 0; i < flex.accessor().nd(); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:66:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 66 | for (int j = i + 1; j < flex.accessor().nd(); ++j) { | ~~^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc: In instantiation of ‘pybind11::buffer_info get_buffer_specific(grid >) [with T = double; grid > = scitbx::af::versa, scitbx::af::flex_grid<> >]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: recursively required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ 249 | return get_buffer(ptr); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:254:36: required from here 254 | return get_buffer(obj.ptr()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:88:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 88 | for (int i = 0; i < dim_sizes.size(); ++i) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:90:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 90 | for (int j = i + 1; j < dim_sizes.size(); ++j) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc: In instantiation of ‘pybind11::buffer_info get_buffer_specific(grid >) [with T = int; grid > = scitbx::af::versa, scitbx::af::flex_grid<> >]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: recursively required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ 249 | return get_buffer(ptr); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:254:36: required from here 254 | return get_buffer(obj.ptr()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:88:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 88 | for (int i = 0; i < dim_sizes.size(); ++i) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:90:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 90 | for (int j = i + 1; j < dim_sizes.size(); ++j) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc: In instantiation of ‘pybind11::buffer_info get_buffer_specific(grid >) [with T = double; grid > = scitbx::af::versa, scitbx::af::flex_grid<> >]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: recursively required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ 249 | return get_buffer(ptr); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:254:36: required from here 254 | return get_buffer(obj.ptr()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:138:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 138 | for (int i = 0; i < dim_sizes.size(); ++i) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:140:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 140 | for (int j = i + 1; j < dim_sizes.size(); ++j) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc: In instantiation of ‘pybind11::buffer_info get_buffer_specific(grid >) [with T = double; grid > = scitbx::af::versa, scitbx::af::flex_grid<> >]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: recursively required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ 249 | return get_buffer(ptr); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:254:36: required from here 254 | return get_buffer(obj.ptr()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:166:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 166 | for (int i = 0; i < dim_sizes.size(); ++i) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:168:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 168 | for (int j = i + 1; j < dim_sizes.size(); ++j) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc: In instantiation of ‘pybind11::buffer_info get_buffer_specific(grid >) [with T = long unsigned int; grid > = scitbx::af::versa, scitbx::af::flex_grid<> >]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: recursively required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ 249 | return get_buffer(ptr); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:254:36: required from here 254 | return get_buffer(obj.ptr()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:191:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 191 | for (int i = 0; i < dim_sizes.size(); ++i) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:193:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 193 | for (int j = i + 1; j < dim_sizes.size(); ++j) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc: In instantiation of ‘pybind11::buffer_info get_buffer_specific(grid >) [with T = double; grid > = scitbx::af::versa, scitbx::af::flex_grid<> >]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: recursively required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ 249 | return get_buffer(ptr); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:254:36: required from here 254 | return get_buffer(obj.ptr()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:215:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 215 | for (int i = 0; i < dim_sizes.size(); ++i) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:217:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 217 | for (int j = i + 1; j < dim_sizes.size(); ++j) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc: In instantiation of ‘pybind11::buffer_info get_buffer_specific(grid >) [with T = int; grid > = scitbx::af::versa, scitbx::af::flex_grid<> >]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: recursively required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ 249 | return get_buffer(ptr); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:254:36: required from here 254 | return get_buffer(obj.ptr()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:113:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 113 | for (int i = 0; i < dim_sizes.size(); ++i) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:115:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 115 | for (int j = i + 1; j < dim_sizes.size(); ++j) { | ~~^~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h:24, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:9: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam()’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:551:18: warning: ‘scitbx::vec3 dxtbx::model::Beam::direction_’ [-Wreorder] 551 | vec3 direction_; | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:93:5: warning: when initialized here [-Wreorder] 93 | Beam() | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:126:5: warning: when initialized here [-Wreorder] 126 | Beam(vec3 direction, double wavelength) | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:165:5: warning: when initialized here [-Wreorder] 165 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:193:5: warning: when initialized here [-Wreorder] 193 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:227:5: warning: when initialized here [-Wreorder] 227 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In member function ‘virtual scitbx::af::shared > dxtbx::model::PolychromaticBeam::get_s0_at_scan_points() const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:760:52: warning: left operand of comma operator has no effect [-Wunused-value] 760 | return scitbx::af::shared >(1, (0., 0., 0.)); | ^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:760:60: warning: right operand of comma operator has no effect [-Wunused-value] 760 | return scitbx::af::shared >(1, (0., 0., 0.)); | ^~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:22, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/detector.h:25, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h:25: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:288:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 288 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:289:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 289 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:328:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 328 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:329:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 329 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:408:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 408 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:409:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 409 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:449:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 449 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:450:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 450 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h: In member function ‘void dxtbx::model::Panel::apply_untrusted_rectangle_mask(scitbx::af::ref >) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:435:36: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 435 | for (std::size_t y = y0; y < y1; ++y) { | ~~^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:436:38: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 436 | for (std::size_t x = x0; x < x1; ++x) { | ~~^~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:22, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h:27: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h: In function ‘scitbx::af::shared dxtbx::model::get_mod2pi_angles_in_range(scitbx::vec2, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h:89:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 89 | for (std::size_t i = 0; i < n_angles; ++i) { | ~~^~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:31, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:6: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In constructor ‘dxtbx::model::Scan::Scan(scitbx::vec2, dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >&, int)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:148:44: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 148 | DXTBX_ASSERT(properties_table.size() == num_images_); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:148:7: note: in expansion of macro ‘DXTBX_ASSERT’ 148 | DXTBX_ASSERT(properties_table.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_properties(dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:242:37: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 242 | DXTBX_ASSERT(new_table.size() == num_images_); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:242:7: note: in expansion of macro ‘DXTBX_ASSERT’ 242 | DXTBX_ASSERT(new_table.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_oscillation(scitbx::vec2)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:397:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 397 | for (std::size_t i = 0; i < num_images_; ++i) { | ~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_exposure_times(scitbx::af::shared)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:411:42: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 411 | DXTBX_ASSERT(exposure_times.size() == num_images_); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:411:7: note: in expansion of macro ‘DXTBX_ASSERT’ 411 | DXTBX_ASSERT(exposure_times.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_epochs(const scitbx::af::shared&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:417:34: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 417 | DXTBX_ASSERT(epochs.size() == num_images_); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:417:7: note: in expansion of macro ‘DXTBX_ASSERT’ 417 | DXTBX_ASSERT(epochs.size() == num_images_); | ^~~~~~~~~~~~ g++ -o dxtbx/src/dxtbx/masking/boost_python/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/base/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx -I/usr/include/python3.13 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/masking/boost_python/ext.cc cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::append(const dxtbx::model::Scan&, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:556:39: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 556 | DXTBX_ASSERT(properties_.size() == num_images_); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:556:7: note: in expansion of macro ‘DXTBX_ASSERT’ 556 | DXTBX_ASSERT(properties_.size() == num_images_); | ^~~~~~~~~~~~ g++ -o dxtbx/src/dxtbx/model/boost_python/beam.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/base/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx -I/usr/include/python3.13 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/beam.cc cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc: In instantiation of ‘std::shared_ptr > dxtbx::format::boost_python::make_image_from_tuple(boost::python::tuple) [with T = bool]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:125:40: required from ‘void dxtbx::format::boost_python::image_wrapper(const char*) [with T = bool]’ 125 | .def("__init__", make_constructor(&make_image_from_tuple)) | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:141:24: required from here 141 | image_wrapper("ImageBool"); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:51:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 51 | for (std::size_t i = 0; i < boost::python::len(data); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc: In instantiation of ‘std::shared_ptr > dxtbx::format::boost_python::make_image_from_tuple(boost::python::tuple) [with T = int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:125:40: required from ‘void dxtbx::format::boost_python::image_wrapper(const char*) [with T = int]’ 125 | .def("__init__", make_constructor(&make_image_from_tuple)) | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:142:23: required from here 142 | image_wrapper("ImageInt"); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:51:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 51 | for (std::size_t i = 0; i < boost::python::len(data); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc: In instantiation of ‘std::shared_ptr > dxtbx::format::boost_python::make_image_from_tuple(boost::python::tuple) [with T = double]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:125:40: required from ‘void dxtbx::format::boost_python::image_wrapper(const char*) [with T = double]’ 125 | .def("__init__", make_constructor(&make_image_from_tuple)) | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:143:26: required from here 143 | image_wrapper("ImageDouble"); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:51:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 51 | for (std::size_t i = 0; i < boost::python::len(data); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc: In instantiation of ‘static void dxtbx::format::boost_python::ImagePickleSuite::setstate(dxtbx::format::Image&, boost::python::tuple) [with T = bool]’: /usr/include/boost/python/class.hpp:345:9: required from ‘boost::python::class_::self& boost::python::class_::def_pickle(const PickleSuiteType&) [with PickleSuiteType = dxtbx::format::boost_python::ImagePickleSuite; W = dxtbx::format::Image; X1 = boost::python::detail::not_specified; X2 = boost::python::detail::not_specified; X3 = boost::python::detail::not_specified; self = boost::python::class_, boost::python::detail::not_specified, boost::python::detail::not_specified, boost::python::detail::not_specified>]’ 345 | &PickleSuiteType::setstate, | ^~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:134:18: required from ‘void dxtbx::format::boost_python::image_wrapper(const char*) [with T = bool]’ 122 | class_(name) | ~~~~~~~~~~~~~~~~~~~~~~~~ 123 | .def(init()) | ~~~~~~~~~~~~~~~~~~~~~~~ 124 | .def("__init__", make_constructor(&make_image_from_flex)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 125 | .def("__init__", make_constructor(&make_image_from_tuple)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 126 | .def("__getitem__", &image_type::tile) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 127 | .def("tile", &image_type::tile) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 128 | .def("tile_names", &image_type::tile_names) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 129 | .def("n_tiles", &image_type::n_tiles) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 130 | .def("empty", &image_type::empty) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 131 | .def("append", &image_type::push_back) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 132 | .def("__len__", &image_type::n_tiles) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | .def("__iter__", range(&image_type::begin, &image_type::end)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 134 | .def_pickle(ImagePickleSuite()); | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:141:24: required from here 141 | image_wrapper("ImageBool"); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:98:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 98 | for (std::size_t i = 0; i < boost::python::len(tile_list); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc: In instantiation of ‘static void dxtbx::format::boost_python::ImagePickleSuite::setstate(dxtbx::format::Image&, boost::python::tuple) [with T = int]’: /usr/include/boost/python/class.hpp:345:9: required from ‘boost::python::class_::self& boost::python::class_::def_pickle(const PickleSuiteType&) [with PickleSuiteType = dxtbx::format::boost_python::ImagePickleSuite; W = dxtbx::format::Image; X1 = boost::python::detail::not_specified; X2 = boost::python::detail::not_specified; X3 = boost::python::detail::not_specified; self = boost::python::class_, boost::python::detail::not_specified, boost::python::detail::not_specified, boost::python::detail::not_specified>]’ 345 | &PickleSuiteType::setstate, | ^~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:134:18: required from ‘void dxtbx::format::boost_python::image_wrapper(const char*) [with T = int]’ 122 | class_(name) | ~~~~~~~~~~~~~~~~~~~~~~~~ 123 | .def(init()) | ~~~~~~~~~~~~~~~~~~~~~~~ 124 | .def("__init__", make_constructor(&make_image_from_flex)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 125 | .def("__init__", make_constructor(&make_image_from_tuple)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 126 | .def("__getitem__", &image_type::tile) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 127 | .def("tile", &image_type::tile) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 128 | .def("tile_names", &image_type::tile_names) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 129 | .def("n_tiles", &image_type::n_tiles) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 130 | .def("empty", &image_type::empty) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 131 | .def("append", &image_type::push_back) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 132 | .def("__len__", &image_type::n_tiles) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | .def("__iter__", range(&image_type::begin, &image_type::end)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 134 | .def_pickle(ImagePickleSuite()); | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:142:23: required from here 142 | image_wrapper("ImageInt"); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:98:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 98 | for (std::size_t i = 0; i < boost::python::len(tile_list); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc: In instantiation of ‘static void dxtbx::format::boost_python::ImagePickleSuite::setstate(dxtbx::format::Image&, boost::python::tuple) [with T = double]’: /usr/include/boost/python/class.hpp:345:9: required from ‘boost::python::class_::self& boost::python::class_::def_pickle(const PickleSuiteType&) [with PickleSuiteType = dxtbx::format::boost_python::ImagePickleSuite; W = dxtbx::format::Image; X1 = boost::python::detail::not_specified; X2 = boost::python::detail::not_specified; X3 = boost::python::detail::not_specified; self = boost::python::class_, boost::python::detail::not_specified, boost::python::detail::not_specified, boost::python::detail::not_specified>]’ 345 | &PickleSuiteType::setstate, | ^~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:134:18: required from ‘void dxtbx::format::boost_python::image_wrapper(const char*) [with T = double]’ 122 | class_(name) | ~~~~~~~~~~~~~~~~~~~~~~~~ 123 | .def(init()) | ~~~~~~~~~~~~~~~~~~~~~~~ 124 | .def("__init__", make_constructor(&make_image_from_flex)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 125 | .def("__init__", make_constructor(&make_image_from_tuple)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 126 | .def("__getitem__", &image_type::tile) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 127 | .def("tile", &image_type::tile) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 128 | .def("tile_names", &image_type::tile_names) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 129 | .def("n_tiles", &image_type::n_tiles) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 130 | .def("empty", &image_type::empty) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 131 | .def("append", &image_type::push_back) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 132 | .def("__len__", &image_type::n_tiles) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | .def("__iter__", range(&image_type::begin, &image_type::end)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 134 | .def_pickle(ImagePickleSuite()); | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:143:26: required from here 143 | image_wrapper("ImageDouble"); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:98:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 98 | for (std::size_t i = 0; i < boost::python::len(tile_list); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/masking/goniometer_shadow_masking.h:12, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h:30: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/masking/masking.h: In function ‘void dxtbx::masking::mask_untrusted_circle(scitbx::af::ref >, double, double, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/masking/masking.h:79:32: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 79 | for (std::size_t j = y0; j < y1; ++j) { | ~~^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/masking/masking.h:80:34: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 80 | for (std::size_t i = x0; i < x1; ++i) { | ~~^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/masking/masking.h: In function ‘void dxtbx::masking::mask_untrusted_polygon(scitbx::af::ref >, const scitbx::af::const_ref >&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/masking/masking.h:143:32: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 143 | for (std::size_t j = y0; j < y1; ++j) { | ~~^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/masking/masking.h:144:34: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 144 | for (std::size_t i = x0; i < x1; ++i) { | ~~^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h: In member function ‘dxtbx::format::ImageBuffer dxtbx::ImageSet::get_raw_data(std::size_t)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h:651:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 651 | if (data_cache_.index == index) { | ~~~~~~~~~~~~~~~~~~^~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h: In member function ‘dxtbx::format::Image dxtbx::ImageSet::get_raw_data_as_double(std::size_t)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h:1119:38: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 1119 | if (double_raw_data_cache_.index == index) { | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h: At global scope: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h:1066:20: warning: ‘virtual dxtbx::ImageSet dxtbx::ImageSet::partial_set(boost::python::api::object, std::size_t, std::size_t) const’ was hidden [-Woverloaded-virtual=] 1066 | virtual ImageSet partial_set(boost::python::object reader, | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h:1206:12: note: by ‘dxtbx::ImageSet dxtbx::ImageGrid::partial_set(std::size_t, std::size_t) const’ 1206 | ImageSet partial_set(std::size_t first, std::size_t last) const { | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h: In constructor ‘dxtbx::ImageGrid::ImageGrid(const dxtbx::ImageSetData&, scitbx::af::int2)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h:1142:46: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 1142 | DXTBX_ASSERT(grid_size[0] * grid_size[1] == size()); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h:1142:5: note: in expansion of macro ‘DXTBX_ASSERT’ 1142 | DXTBX_ASSERT(grid_size[0] * grid_size[1] == size()); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h: In constructor ‘dxtbx::ImageGrid::ImageGrid(const dxtbx::ImageSetData&, const scitbx::af::const_ref&, scitbx::af::int2)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h:1156:46: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 1156 | DXTBX_ASSERT(grid_size[0] * grid_size[1] == size()); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h:1156:5: note: in expansion of macro ‘DXTBX_ASSERT’ 1156 | DXTBX_ASSERT(grid_size[0] * grid_size[1] == size()); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h: At global scope: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h:1066:20: warning: ‘virtual dxtbx::ImageSet dxtbx::ImageSet::partial_set(boost::python::api::object, std::size_t, std::size_t) const’ was hidden [-Woverloaded-virtual=] 1066 | virtual ImageSet partial_set(boost::python::object reader, | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h:1477:12: note: by ‘dxtbx::ImageSet dxtbx::ImageSequence::partial_set(std::size_t, std::size_t) const’ 1477 | ImageSet partial_set(std::size_t first, std::size_t last) const { | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h: In constructor ‘dxtbx::ImageSequence::ImageSequence(const dxtbx::ImageSetData&, const dxtbx::ImageSet::beam_ptr&, const dxtbx::ImageSet::detector_ptr&, const dxtbx::ImageSet::goniometer_ptr&, const dxtbx::ImageSet::scan_ptr&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h:1241:23: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 1241 | if (data.size() != scan->get_num_images()) { | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h: In constructor ‘dxtbx::ImageSequence::ImageSequence(const dxtbx::ImageSetData&, const scitbx::af::const_ref&, const dxtbx::ImageSet::beam_ptr&, const dxtbx::ImageSet::detector_ptr&, const dxtbx::ImageSet::goniometer_ptr&, const dxtbx::ImageSet::scan_ptr&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h:1280:26: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 1280 | if (indices.size() != scan->get_num_images()) { | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h: In member function ‘void dxtbx::ImageSequence::set_scan(const dxtbx::ImageSet::scan_ptr&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h:1402:32: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 1402 | if (scan->get_num_images() != size()) { | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h:1418:41: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 1418 | DXTBX_ASSERT(scan->get_num_images() == size()); | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h:1418:5: note: in expansion of macro ‘DXTBX_ASSERT’ 1418 | DXTBX_ASSERT(scan->get_num_images() == size()); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h: In instantiation of ‘dxtbx::format::Image dxtbx::ImageSetData::get_image_from_tuple(boost::python::tuple) [with T = double]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h:469:56: required from here 469 | buffer = ImageBuffer(get_image_from_tuple(obj)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h:505:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 505 | for (std::size_t i = 0; i < boost::python::len(obj); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h: In instantiation of ‘dxtbx::format::Image dxtbx::ImageSetData::get_image_from_tuple(boost::python::tuple) [with T = float]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h:471:55: required from here 471 | buffer = ImageBuffer(get_image_from_tuple(obj)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h:505:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 505 | for (std::size_t i = 0; i < boost::python::len(obj); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h: In instantiation of ‘dxtbx::format::Image dxtbx::ImageSetData::get_image_from_tuple(boost::python::tuple) [with T = int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h:473:53: required from here 473 | buffer = ImageBuffer(get_image_from_tuple(obj)); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/imageset.h:505:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 505 | for (std::size_t i = 0; i < boost::python::len(obj); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc: In instantiation of ‘static void dxtbx::boost_python::ImageSetDataPickleSuite::set_model_list(dxtbx::ImageSetData&, boost::python::tuple, Func) [with Model = dxtbx::model::BeamBase; Func = void (dxtbx::ImageSetData::*)(const std::shared_ptr&, long unsigned int)]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:250:56: required from here 250 | ImageSetDataPickleSuite::set_model_list( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 251 | obj, | ~~~~ 252 | boost::python::extract(models[0])(), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 253 | &ImageSetData::set_beam); | ~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:232:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 232 | for (std::size_t i = 0; i < boost::python::len(models); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:236:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 236 | for (std::size_t i = 0; i < boost::python::len(indices); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc: In instantiation of ‘static void dxtbx::boost_python::ImageSetDataPickleSuite::set_model_list(dxtbx::ImageSetData&, boost::python::tuple, Func) [with Model = dxtbx::model::Detector; Func = void (dxtbx::ImageSetData::*)(const std::shared_ptr&, long unsigned int)]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:254:56: required from here 254 | ImageSetDataPickleSuite::set_model_list( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 255 | obj, | ~~~~ 256 | boost::python::extract(models[1]), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 257 | &ImageSetData::set_detector); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:232:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 232 | for (std::size_t i = 0; i < boost::python::len(models); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:236:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 236 | for (std::size_t i = 0; i < boost::python::len(indices); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc: In instantiation of ‘static void dxtbx::boost_python::ImageSetDataPickleSuite::set_model_list(dxtbx::ImageSetData&, boost::python::tuple, Func) [with Model = dxtbx::model::Goniometer; Func = void (dxtbx::ImageSetData::*)(const std::shared_ptr&, long unsigned int)]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:258:58: required from here 258 | ImageSetDataPickleSuite::set_model_list( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 259 | obj, | ~~~~ 260 | boost::python::extract(models[2]), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 261 | &ImageSetData::set_goniometer); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:232:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 232 | for (std::size_t i = 0; i < boost::python::len(models); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:236:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 236 | for (std::size_t i = 0; i < boost::python::len(indices); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc: In instantiation of ‘static void dxtbx::boost_python::ImageSetDataPickleSuite::set_model_list(dxtbx::ImageSetData&, boost::python::tuple, Func) [with Model = dxtbx::model::Scan; Func = void (dxtbx::ImageSetData::*)(const std::shared_ptr&, long unsigned int)]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:262:52: required from here 262 | ImageSetDataPickleSuite::set_model_list( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 263 | obj, | ~~~~ 264 | boost::python::extract(models[3]), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 265 | &ImageSetData::set_scan); | ~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:232:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 232 | for (std::size_t i = 0; i < boost::python::len(models); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:236:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 236 | for (std::size_t i = 0; i < boost::python::len(indices); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/masking/masking.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/masking/boost_python/ext.cc:3: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam()’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:551:18: warning: ‘scitbx::vec3 dxtbx::model::Beam::direction_’ [-Wreorder] 551 | vec3 direction_; | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:93:5: warning: when initialized here [-Wreorder] 93 | Beam() | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:126:5: warning: when initialized here [-Wreorder] 126 | Beam(vec3 direction, double wavelength) | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:165:5: warning: when initialized here [-Wreorder] 165 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:193:5: warning: when initialized here [-Wreorder] 193 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:227:5: warning: when initialized here [-Wreorder] 227 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In member function ‘virtual scitbx::af::shared > dxtbx::model::PolychromaticBeam::get_s0_at_scan_points() const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:760:52: warning: left operand of comma operator has no effect [-Wunused-value] 760 | return scitbx::af::shared >(1, (0., 0., 0.)); | ^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:760:60: warning: right operand of comma operator has no effect [-Wunused-value] 760 | return scitbx::af::shared >(1, (0., 0., 0.)); | ^~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:22, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/masking/masking.h:17: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:288:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 288 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:289:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 289 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:328:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 328 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:329:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 329 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:408:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 408 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:409:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 409 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:449:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 449 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:450:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 450 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h: In member function ‘void dxtbx::model::Panel::apply_untrusted_rectangle_mask(scitbx::af::ref >) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:435:36: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 435 | for (std::size_t y = y0; y < y1; ++y) { | ~~^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:436:38: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 436 | for (std::size_t x = x0; x < x1; ++x) { | ~~^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/masking/masking.h: In function ‘void dxtbx::masking::mask_untrusted_circle(scitbx::af::ref >, double, double, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/masking/masking.h:79:32: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 79 | for (std::size_t j = y0; j < y1; ++j) { | ~~^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/masking/masking.h:80:34: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 80 | for (std::size_t i = x0; i < x1; ++i) { | ~~^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/masking/masking.h: In function ‘void dxtbx::masking::mask_untrusted_polygon(scitbx::af::ref >, const scitbx::af::const_ref >&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/masking/masking.h:143:32: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 143 | for (std::size_t j = y0; j < y1; ++j) { | ~~^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/masking/masking.h:144:34: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 144 | for (std::size_t i = x0; i < x1; ++i) { | ~~^~~~ g++ -o dxtbx/src/dxtbx/model/boost_python/crystal.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/base/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx -I/usr/include/python3.13 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/crystal.cc cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/beam.cc:17: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam()’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:551:18: warning: ‘scitbx::vec3 dxtbx::model::Beam::direction_’ [-Wreorder] 551 | vec3 direction_; | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:93:5: warning: when initialized here [-Wreorder] 93 | Beam() | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:126:5: warning: when initialized here [-Wreorder] 126 | Beam(vec3 direction, double wavelength) | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:165:5: warning: when initialized here [-Wreorder] 165 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:193:5: warning: when initialized here [-Wreorder] 193 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:227:5: warning: when initialized here [-Wreorder] 227 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In member function ‘virtual scitbx::af::shared > dxtbx::model::PolychromaticBeam::get_s0_at_scan_points() const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:760:52: warning: left operand of comma operator has no effect [-Wunused-value] 760 | return scitbx::af::shared >(1, (0., 0., 0.)); | ^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:760:60: warning: right operand of comma operator has no effect [-Wunused-value] 760 | return scitbx::af::shared >(1, (0., 0., 0.)); | ^~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:22, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/detector.h:25, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/to_from_dict.h:18, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/beam.cc:18: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:288:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 288 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:289:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 289 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:328:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 328 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:329:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 329 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:408:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 408 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:409:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 409 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:449:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 449 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:450:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 450 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h: In member function ‘void dxtbx::model::Panel::apply_untrusted_rectangle_mask(scitbx::af::ref >) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:435:36: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 435 | for (std::size_t y = y0; y < y1; ++y) { | ~~^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:436:38: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 436 | for (std::size_t x = x0; x < x1; ++x) { | ~~^~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:22, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/to_from_dict.h:20: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h: In function ‘scitbx::af::shared dxtbx::model::get_mod2pi_angles_in_range(scitbx::vec2, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h:89:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 89 | for (std::size_t i = 0; i < n_angles; ++i) { | ~~^~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/vec3.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:17: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In constructor ‘dxtbx::model::Scan::Scan(scitbx::vec2, dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >&, int)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:148:44: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 148 | DXTBX_ASSERT(properties_table.size() == num_images_); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:148:7: note: in expansion of macro ‘DXTBX_ASSERT’ 148 | DXTBX_ASSERT(properties_table.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_properties(dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:242:37: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 242 | DXTBX_ASSERT(new_table.size() == num_images_); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:242:7: note: in expansion of macro ‘DXTBX_ASSERT’ 242 | DXTBX_ASSERT(new_table.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_oscillation(scitbx::vec2)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:397:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 397 | for (std::size_t i = 0; i < num_images_; ++i) { | ~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_exposure_times(scitbx::af::shared)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:411:42: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 411 | DXTBX_ASSERT(exposure_times.size() == num_images_); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:411:7: note: in expansion of macro ‘DXTBX_ASSERT’ 411 | DXTBX_ASSERT(exposure_times.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_epochs(const scitbx::af::shared&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:417:34: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 417 | DXTBX_ASSERT(epochs.size() == num_images_); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:417:7: note: in expansion of macro ‘DXTBX_ASSERT’ 417 | DXTBX_ASSERT(epochs.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::append(const dxtbx::model::Scan&, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:556:39: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 556 | DXTBX_ASSERT(properties_.size() == num_images_); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:556:7: note: in expansion of macro ‘DXTBX_ASSERT’ 556 | DXTBX_ASSERT(properties_.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/beam.cc: In function ‘void dxtbx::model::boost_python::beam_detail::Beam_set_s0_at_scan_points_from_tuple(dxtbx::model::Beam&, boost::python::tuple)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/beam.cc:209:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 209 | for (std::size_t i = 0; i < boost::python::len(l); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/beam.cc: In function ‘void dxtbx::model::boost_python::beam_detail::Beam_set_s0_at_scan_points_from_list(dxtbx::model::Beam&, boost::python::list)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/beam.cc:219:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 219 | for (std::size_t i = 0; i < boost::python::len(l); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/beam.cc: In static member function ‘static boost::python::tuple dxtbx::model::boost_python::PolychromaticBeamPickleSuite::getstate(boost::python::api::object)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/beam.cc:302:32: warning: unused variable ‘beam’ [-Wunused-variable] 302 | const PolychromaticBeam &beam = | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/beam.cc: In static member function ‘static void dxtbx::model::boost_python::PolychromaticBeamPickleSuite::setstate(boost::python::api::object, boost::python::tuple)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/beam.cc:308:26: warning: unused variable ‘beam’ [-Wunused-variable] 308 | PolychromaticBeam &beam = boost::python::extract(obj)(); | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/crystal.cc: In function ‘void dxtbx::model::boost_python::Crystal_set_A_at_scan_points_from_tuple(dxtbx::model::CrystalBase&, boost::python::tuple)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/crystal.cc:119:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 119 | for (std::size_t i = 0; i < boost::python::len(l); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/crystal.cc: In function ‘void dxtbx::model::boost_python::Crystal_set_A_at_scan_points_from_list(dxtbx::model::CrystalBase&, boost::python::list)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/crystal.cc:129:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 129 | for (std::size_t i = 0; i < boost::python::len(l); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/crystal.cc: In function ‘void dxtbx::model::boost_python::Crystal_set_B_covariance_from_tuple(dxtbx::model::CrystalBase&, boost::python::api::object)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/crystal.cc:141:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 141 | for (std::size_t i = 0; i < boost::python::len(obj); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~ g++ -o dxtbx/src/dxtbx/model/boost_python/detector.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/base/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx -I/usr/include/python3.13 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o dxtbx/src/dxtbx/model/boost_python/experiment.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/base/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx -I/usr/include/python3.13 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment.cc cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/virtual_panel.h:28, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel_data.h:17, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:22, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/detector.h:25, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:22: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam()’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:551:18: warning: ‘scitbx::vec3 dxtbx::model::Beam::direction_’ [-Wreorder] 551 | vec3 direction_; | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:93:5: warning: when initialized here [-Wreorder] 93 | Beam() | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:126:5: warning: when initialized here [-Wreorder] 126 | Beam(vec3 direction, double wavelength) | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:165:5: warning: when initialized here [-Wreorder] 165 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:193:5: warning: when initialized here [-Wreorder] 193 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:227:5: warning: when initialized here [-Wreorder] 227 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In member function ‘virtual scitbx::af::shared > dxtbx::model::PolychromaticBeam::get_s0_at_scan_points() const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:760:52: warning: left operand of comma operator has no effect [-Wunused-value] 760 | return scitbx::af::shared >(1, (0., 0., 0.)); | ^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:760:60: warning: right operand of comma operator has no effect [-Wunused-value] 760 | return scitbx::af::shared >(1, (0., 0., 0.)); | ^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:288:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 288 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:289:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 289 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:328:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 328 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:329:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 329 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:408:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 408 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:409:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 409 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:449:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 449 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:450:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 450 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h: In member function ‘void dxtbx::model::Panel::apply_untrusted_rectangle_mask(scitbx::af::ref >) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:435:36: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 435 | for (std::size_t y = y0; y < y1; ++y) { | ~~^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:436:38: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 436 | for (std::size_t x = x0; x < x1; ++x) { | ~~^~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:22, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/to_from_dict.h:20, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:23: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h: In function ‘scitbx::af::shared dxtbx::model::get_mod2pi_angles_in_range(scitbx::vec2, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h:89:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 89 | for (std::size_t i = 0; i < n_angles; ++i) { | ~~^~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/accessors/flex_grid.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/flex_types.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:18: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In constructor ‘dxtbx::model::Scan::Scan(scitbx::vec2, dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >&, int)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:148:44: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 148 | DXTBX_ASSERT(properties_table.size() == num_images_); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:148:7: note: in expansion of macro ‘DXTBX_ASSERT’ 148 | DXTBX_ASSERT(properties_table.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_properties(dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:242:37: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 242 | DXTBX_ASSERT(new_table.size() == num_images_); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:242:7: note: in expansion of macro ‘DXTBX_ASSERT’ 242 | DXTBX_ASSERT(new_table.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_oscillation(scitbx::vec2)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:397:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 397 | for (std::size_t i = 0; i < num_images_; ++i) { | ~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_exposure_times(scitbx::af::shared)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:411:42: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 411 | DXTBX_ASSERT(exposure_times.size() == num_images_); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:411:7: note: in expansion of macro ‘DXTBX_ASSERT’ 411 | DXTBX_ASSERT(exposure_times.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_epochs(const scitbx::af::shared&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:417:34: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 417 | DXTBX_ASSERT(epochs.size() == num_images_); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:417:7: note: in expansion of macro ‘DXTBX_ASSERT’ 417 | DXTBX_ASSERT(epochs.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::append(const dxtbx::model::Scan&, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:556:39: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 556 | DXTBX_ASSERT(properties_.size() == num_images_); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:556:7: note: in expansion of macro ‘DXTBX_ASSERT’ 556 | DXTBX_ASSERT(properties_.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc: In function ‘void dxtbx::model::boost_python::detector_detail::node_from_dict(boost::python::dict, dxtbx::model::Detector::Node*, boost::python::list, scitbx::af::ref)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:88:34: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 88 | DXTBX_ASSERT(used.size() == boost::python::len(panels)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:88:9: note: in expansion of macro ‘DXTBX_ASSERT’ 88 | DXTBX_ASSERT(used.size() == boost::python::len(panels)); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:89:26: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 89 | DXTBX_ASSERT(idx < boost::python::len(panels)); | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:89:9: note: in expansion of macro ‘DXTBX_ASSERT’ 89 | DXTBX_ASSERT(idx < boost::python::len(panels)); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:100:35: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 100 | for (std::size_t i = 0; i < boost::python::len(obj["children"]); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc: In function ‘dxtbx::model::Detector* dxtbx::model::boost_python::detector_detail::detector_from_dict(dxtbx::model::Detector*, boost::python::dict)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:124:35: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 124 | for (std::size_t i = 0; i < boost::python::len(hierarchy["children"]); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:134:35: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 134 | for (std::size_t i = 0; i < boost::python::len(panels); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc: In function ‘dxtbx::model::Detector* dxtbx::model::boost_python::detector_detail::detector_from_dict(dxtbx::model::Detector*, boost::python::dict, const dxtbx::format::Image&, const dxtbx::format::Image&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:158:35: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 158 | for (std::size_t i = 0; i < boost::python::len(hierarchy["children"]); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:168:35: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 168 | for (std::size_t i = 0; i < boost::python::len(panels); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc: In static member function ‘static void dxtbx::model::boost_python::detector_detail::DetectorPickleSuite::copy_node(dxtbx::model::Detector::Node::pointer, boost::python::dict, boost::python::list)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:228:35: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 228 | for (std::size_t i = 0; i < boost::python::len(node["children"]); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -o dxtbx/src/dxtbx/model/boost_python/experiment_list.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/base/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx -I/usr/include/python3.13 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/experiment.h:22, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment.cc:17: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam()’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:551:18: warning: ‘scitbx::vec3 dxtbx::model::Beam::direction_’ [-Wreorder] 551 | vec3 direction_; | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:93:5: warning: when initialized here [-Wreorder] 93 | Beam() | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:126:5: warning: when initialized here [-Wreorder] 126 | Beam(vec3 direction, double wavelength) | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:165:5: warning: when initialized here [-Wreorder] 165 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:193:5: warning: when initialized here [-Wreorder] 193 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:227:5: warning: when initialized here [-Wreorder] 227 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In member function ‘virtual scitbx::af::shared > dxtbx::model::PolychromaticBeam::get_s0_at_scan_points() const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:760:52: warning: left operand of comma operator has no effect [-Wunused-value] 760 | return scitbx::af::shared >(1, (0., 0., 0.)); | ^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:760:60: warning: right operand of comma operator has no effect [-Wunused-value] 760 | return scitbx::af::shared >(1, (0., 0., 0.)); | ^~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:22, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/detector.h:25, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/experiment.h:23: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:288:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 288 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:289:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 289 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:328:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 328 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:329:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 329 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:408:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 408 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:409:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 409 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:449:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 449 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:450:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 450 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h: In member function ‘void dxtbx::model::Panel::apply_untrusted_rectangle_mask(scitbx::af::ref >) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:435:36: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 435 | for (std::size_t y = y0; y < y1; ++y) { | ~~^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:436:38: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 436 | for (std::size_t x = x0; x < x1; ++x) { | ~~^~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:22, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/experiment.h:25: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h: In function ‘scitbx::af::shared dxtbx::model::get_mod2pi_angles_in_range(scitbx::vec2, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h:89:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 89 | for (std::size_t i = 0; i < n_angles; ++i) { | ~~^~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/vec3.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/experiment.h:19: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In constructor ‘dxtbx::model::Scan::Scan(scitbx::vec2, dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >&, int)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:148:44: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 148 | DXTBX_ASSERT(properties_table.size() == num_images_); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:148:7: note: in expansion of macro ‘DXTBX_ASSERT’ 148 | DXTBX_ASSERT(properties_table.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_properties(dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:242:37: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 242 | DXTBX_ASSERT(new_table.size() == num_images_); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:242:7: note: in expansion of macro ‘DXTBX_ASSERT’ 242 | DXTBX_ASSERT(new_table.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_oscillation(scitbx::vec2)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:397:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 397 | for (std::size_t i = 0; i < num_images_; ++i) { | ~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_exposure_times(scitbx::af::shared)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:411:42: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 411 | DXTBX_ASSERT(exposure_times.size() == num_images_); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:411:7: note: in expansion of macro ‘DXTBX_ASSERT’ 411 | DXTBX_ASSERT(exposure_times.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_epochs(const scitbx::af::shared&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:417:34: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 417 | DXTBX_ASSERT(epochs.size() == num_images_); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:417:7: note: in expansion of macro ‘DXTBX_ASSERT’ 417 | DXTBX_ASSERT(epochs.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::append(const dxtbx::model::Scan&, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:556:39: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 556 | DXTBX_ASSERT(properties_.size() == num_images_); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:556:7: note: in expansion of macro ‘DXTBX_ASSERT’ 556 | DXTBX_ASSERT(properties_.size() == num_images_); | ^~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/experiment.h:22, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/experiment_list.h:23, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc:20: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam()’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:551:18: warning: ‘scitbx::vec3 dxtbx::model::Beam::direction_’ [-Wreorder] 551 | vec3 direction_; | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:93:5: warning: when initialized here [-Wreorder] 93 | Beam() | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:126:5: warning: when initialized here [-Wreorder] 126 | Beam(vec3 direction, double wavelength) | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:165:5: warning: when initialized here [-Wreorder] 165 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:193:5: warning: when initialized here [-Wreorder] 193 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:227:5: warning: when initialized here [-Wreorder] 227 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In member function ‘virtual scitbx::af::shared > dxtbx::model::PolychromaticBeam::get_s0_at_scan_points() const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:760:52: warning: left operand of comma operator has no effect [-Wunused-value] 760 | return scitbx::af::shared >(1, (0., 0., 0.)); | ^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:760:60: warning: right operand of comma operator has no effect [-Wunused-value] 760 | return scitbx::af::shared >(1, (0., 0., 0.)); | ^~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:22, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/detector.h:25, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/experiment.h:23: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:288:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 288 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:289:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 289 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:328:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 328 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:329:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 329 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:408:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 408 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:409:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 409 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:449:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 449 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:450:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 450 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h: In member function ‘void dxtbx::model::Panel::apply_untrusted_rectangle_mask(scitbx::af::ref >) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:435:36: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 435 | for (std::size_t y = y0; y < y1; ++y) { | ~~^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:436:38: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 436 | for (std::size_t x = x0; x < x1; ++x) { | ~~^~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:22, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/experiment.h:25: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h: In function ‘scitbx::af::shared dxtbx::model::get_mod2pi_angles_in_range(scitbx::vec2, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h:89:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 89 | for (std::size_t i = 0; i < n_angles; ++i) { | ~~^~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/vec3.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/experiment_list.h:20: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In constructor ‘dxtbx::model::Scan::Scan(scitbx::vec2, dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >&, int)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:148:44: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 148 | DXTBX_ASSERT(properties_table.size() == num_images_); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:148:7: note: in expansion of macro ‘DXTBX_ASSERT’ 148 | DXTBX_ASSERT(properties_table.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_properties(dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:242:37: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 242 | DXTBX_ASSERT(new_table.size() == num_images_); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:242:7: note: in expansion of macro ‘DXTBX_ASSERT’ 242 | DXTBX_ASSERT(new_table.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_oscillation(scitbx::vec2)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:397:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 397 | for (std::size_t i = 0; i < num_images_; ++i) { | ~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_exposure_times(scitbx::af::shared)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:411:42: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 411 | DXTBX_ASSERT(exposure_times.size() == num_images_); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:411:7: note: in expansion of macro ‘DXTBX_ASSERT’ 411 | DXTBX_ASSERT(exposure_times.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_epochs(const scitbx::af::shared&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:417:34: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 417 | DXTBX_ASSERT(epochs.size() == num_images_); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:417:7: note: in expansion of macro ‘DXTBX_ASSERT’ 417 | DXTBX_ASSERT(epochs.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::append(const dxtbx::model::Scan&, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:556:39: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 556 | DXTBX_ASSERT(properties_.size() == num_images_); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:556:7: note: in expansion of macro ‘DXTBX_ASSERT’ 556 | DXTBX_ASSERT(properties_.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc: In function ‘dxtbx::model::ExperimentList* dxtbx::model::boost_python::make_experiment_list(boost::python::api::object)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc:30:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 30 | for (std::size_t i = 0; i < boost::python::len(items); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc: In function ‘void dxtbx::model::boost_python::experiment_list_setitem(dxtbx::model::ExperimentList&, int, dxtbx::model::Experiment)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc:174:11: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 174 | if (n >= self.size() || n < 0) { | ~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc: In function ‘dxtbx::model::Experiment& dxtbx::model::boost_python::experiment_list_getitem(dxtbx::model::ExperimentList&, int)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc:184:11: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 184 | if (n >= self.size() || n < 0) { | ~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc: In function ‘dxtbx::model::ExperimentList dxtbx::model::boost_python::experiment_list_getitem_slice(const dxtbx::model::ExperimentList&, boost::python::slice)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc:193:38: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘long int’ [-Wsign-compare] 193 | for (std::size_t i = as.start; i < as.stop && i < self.size(); i += as.step) { | ~~^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc: In function ‘void dxtbx::model::boost_python::experiment_list_delitem(dxtbx::model::ExperimentList&, int)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc:203:11: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 203 | if (n >= self.size() || n < 0) { | ~~^~~~~~~~~~~~~~ g++ -o dxtbx/src/dxtbx/model/boost_python/goniometer.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/base/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx -I/usr/include/python3.13 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/goniometer.cc cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/to_from_dict.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/goniometer.cc:20: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam()’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:551:18: warning: ‘scitbx::vec3 dxtbx::model::Beam::direction_’ [-Wreorder] 551 | vec3 direction_; | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:93:5: warning: when initialized here [-Wreorder] 93 | Beam() | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:126:5: warning: when initialized here [-Wreorder] 126 | Beam(vec3 direction, double wavelength) | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:165:5: warning: when initialized here [-Wreorder] 165 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:193:5: warning: when initialized here [-Wreorder] 193 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:227:5: warning: when initialized here [-Wreorder] 227 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In member function ‘virtual scitbx::af::shared > dxtbx::model::PolychromaticBeam::get_s0_at_scan_points() const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:760:52: warning: left operand of comma operator has no effect [-Wunused-value] 760 | return scitbx::af::shared >(1, (0., 0., 0.)); | ^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:760:60: warning: right operand of comma operator has no effect [-Wunused-value] 760 | return scitbx::af::shared >(1, (0., 0., 0.)); | ^~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:22, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/detector.h:25, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/to_from_dict.h:18: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:288:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 288 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:289:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 289 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:328:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 328 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:329:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 329 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:408:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 408 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:409:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 409 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:449:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 449 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:450:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 450 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h: In member function ‘void dxtbx::model::Panel::apply_untrusted_rectangle_mask(scitbx::af::ref >) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:435:36: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 435 | for (std::size_t y = y0; y < y1; ++y) { | ~~^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:436:38: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 436 | for (std::size_t x = x0; x < x1; ++x) { | ~~^~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:22, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/to_from_dict.h:20: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h: In function ‘scitbx::af::shared dxtbx::model::get_mod2pi_angles_in_range(scitbx::vec2, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h:89:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 89 | for (std::size_t i = 0; i < n_angles; ++i) { | ~~^~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/vec3.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/goniometer.h:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/goniometer.cc:17: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In constructor ‘dxtbx::model::Scan::Scan(scitbx::vec2, dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >&, int)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:148:44: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 148 | DXTBX_ASSERT(properties_table.size() == num_images_); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:148:7: note: in expansion of macro ‘DXTBX_ASSERT’ 148 | DXTBX_ASSERT(properties_table.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_properties(dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:242:37: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 242 | DXTBX_ASSERT(new_table.size() == num_images_); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:242:7: note: in expansion of macro ‘DXTBX_ASSERT’ 242 | DXTBX_ASSERT(new_table.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_oscillation(scitbx::vec2)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:397:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 397 | for (std::size_t i = 0; i < num_images_; ++i) { | ~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_exposure_times(scitbx::af::shared)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:411:42: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 411 | DXTBX_ASSERT(exposure_times.size() == num_images_); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:411:7: note: in expansion of macro ‘DXTBX_ASSERT’ 411 | DXTBX_ASSERT(exposure_times.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_epochs(const scitbx::af::shared&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:417:34: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 417 | DXTBX_ASSERT(epochs.size() == num_images_); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:417:7: note: in expansion of macro ‘DXTBX_ASSERT’ 417 | DXTBX_ASSERT(epochs.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::append(const dxtbx::model::Scan&, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:556:39: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 556 | DXTBX_ASSERT(properties_.size() == num_images_); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:556:7: note: in expansion of macro ‘DXTBX_ASSERT’ 556 | DXTBX_ASSERT(properties_.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/goniometer.cc: In function ‘void dxtbx::model::boost_python::goniometer_detail::Goniometer_set_S_at_scan_points_from_tuple(dxtbx::model::Goniometer&, boost::python::tuple)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/goniometer.cc:79:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 79 | for (std::size_t i = 0; i < boost::python::len(l); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/goniometer.cc: In function ‘void dxtbx::model::boost_python::goniometer_detail::Goniometer_set_S_at_scan_points_from_list(dxtbx::model::Goniometer&, boost::python::list)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/goniometer.cc:89:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 89 | for (std::size_t i = 0; i < boost::python::len(l); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~ g++ -o dxtbx/src/dxtbx/model/boost_python/history.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/base/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx -I/usr/include/python3.13 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/history.cc cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o dxtbx/src/dxtbx/model/boost_python/kappa_goniometer.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/base/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx -I/usr/include/python3.13 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/kappa_goniometer.cc cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o dxtbx/src/dxtbx/model/boost_python/model_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/base/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx -I/usr/include/python3.13 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/model_ext.cc cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o dxtbx/src/dxtbx/model/boost_python/multi_axis_goniometer.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/base/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx -I/usr/include/python3.13 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/multi_axis_goniometer.cc cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o dxtbx/src/dxtbx/model/boost_python/panel.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/base/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx -I/usr/include/python3.13 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/panel.cc cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o dxtbx/src/dxtbx/model/boost_python/parallax_correction.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/base/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx -I/usr/include/python3.13 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/parallax_correction.cc cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o dxtbx/src/dxtbx/model/boost_python/pixel_to_millimeter.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/base/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx -I/usr/include/python3.13 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/pixel_to_millimeter.cc cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/to_from_dict.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/multi_axis_goniometer.cc:18: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam()’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:551:18: warning: ‘scitbx::vec3 dxtbx::model::Beam::direction_’ [-Wreorder] 551 | vec3 direction_; | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:93:5: warning: when initialized here [-Wreorder] 93 | Beam() | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:126:5: warning: when initialized here [-Wreorder] 126 | Beam(vec3 direction, double wavelength) | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:165:5: warning: when initialized here [-Wreorder] 165 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:193:5: warning: when initialized here [-Wreorder] 193 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:227:5: warning: when initialized here [-Wreorder] 227 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In member function ‘virtual scitbx::af::shared > dxtbx::model::PolychromaticBeam::get_s0_at_scan_points() const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:760:52: warning: left operand of comma operator has no effect [-Wunused-value] 760 | return scitbx::af::shared >(1, (0., 0., 0.)); | ^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:760:60: warning: right operand of comma operator has no effect [-Wunused-value] 760 | return scitbx::af::shared >(1, (0., 0., 0.)); | ^~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:22, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/detector.h:25, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/to_from_dict.h:18: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:288:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 288 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:289:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 289 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:328:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 328 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:329:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 329 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:408:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 408 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:409:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 409 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:449:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 449 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:450:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 450 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h: In member function ‘void dxtbx::model::Panel::apply_untrusted_rectangle_mask(scitbx::af::ref >) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:435:36: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 435 | for (std::size_t y = y0; y < y1; ++y) { | ~~^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:436:38: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 436 | for (std::size_t x = x0; x < x1; ++x) { | ~~^~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:22, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/to_from_dict.h:20: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h: In function ‘scitbx::af::shared dxtbx::model::get_mod2pi_angles_in_range(scitbx::vec2, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h:89:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 89 | for (std::size_t i = 0; i < n_angles; ++i) { | ~~^~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/vec3.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/goniometer.h:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/multi_axis_goniometer.cc:16: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In constructor ‘dxtbx::model::Scan::Scan(scitbx::vec2, dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >&, int)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:148:44: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 148 | DXTBX_ASSERT(properties_table.size() == num_images_); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:148:7: note: in expansion of macro ‘DXTBX_ASSERT’ 148 | DXTBX_ASSERT(properties_table.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_properties(dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:242:37: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 242 | DXTBX_ASSERT(new_table.size() == num_images_); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:242:7: note: in expansion of macro ‘DXTBX_ASSERT’ 242 | DXTBX_ASSERT(new_table.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_oscillation(scitbx::vec2)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:397:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 397 | for (std::size_t i = 0; i < num_images_; ++i) { | ~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_exposure_times(scitbx::af::shared)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:411:42: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 411 | DXTBX_ASSERT(exposure_times.size() == num_images_); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:411:7: note: in expansion of macro ‘DXTBX_ASSERT’ 411 | DXTBX_ASSERT(exposure_times.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_epochs(const scitbx::af::shared&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:417:34: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 417 | DXTBX_ASSERT(epochs.size() == num_images_); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:417:7: note: in expansion of macro ‘DXTBX_ASSERT’ 417 | DXTBX_ASSERT(epochs.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::append(const dxtbx::model::Scan&, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:556:39: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 556 | DXTBX_ASSERT(properties_.size() == num_images_); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:556:7: note: in expansion of macro ‘DXTBX_ASSERT’ 556 | DXTBX_ASSERT(properties_.size() == num_images_); | ^~~~~~~~~~~~ g++ -o dxtbx/src/dxtbx/model/boost_python/scan.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/base/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx -I/usr/include/python3.13 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/scan.cc cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/multi_axis_goniometer.cc: In function ‘T* dxtbx::model::boost_python::from_dict(boost::python::dict) [with T = dxtbx::model::MultiAxisGoniometer]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/multi_axis_goniometer.cc:105:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 105 | for (std::size_t i = 0; i < boost::python::len(l); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/virtual_panel.h:28, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel_data.h:17, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:22, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/pixel_to_millimeter.cc:14: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam()’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:551:18: warning: ‘scitbx::vec3 dxtbx::model::Beam::direction_’ [-Wreorder] 551 | vec3 direction_; | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:93:5: warning: when initialized here [-Wreorder] 93 | Beam() | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:126:5: warning: when initialized here [-Wreorder] 126 | Beam(vec3 direction, double wavelength) | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:165:5: warning: when initialized here [-Wreorder] 165 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:193:5: warning: when initialized here [-Wreorder] 193 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:227:5: warning: when initialized here [-Wreorder] 227 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In member function ‘virtual scitbx::af::shared > dxtbx::model::PolychromaticBeam::get_s0_at_scan_points() const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:760:52: warning: left operand of comma operator has no effect [-Wunused-value] 760 | return scitbx::af::shared >(1, (0., 0., 0.)); | ^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:760:60: warning: right operand of comma operator has no effect [-Wunused-value] 760 | return scitbx::af::shared >(1, (0., 0., 0.)); | ^~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/virtual_panel.h:28, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel_data.h:17, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:22, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/panel.cc:20: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam()’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:551:18: warning: ‘scitbx::vec3 dxtbx::model::Beam::direction_’ [-Wreorder] 551 | vec3 direction_; | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:93:5: warning: when initialized here [-Wreorder] 93 | Beam() | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:126:5: warning: when initialized here [-Wreorder] 126 | Beam(vec3 direction, double wavelength) | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:165:5: warning: when initialized here [-Wreorder] 165 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:193:5: warning: when initialized here [-Wreorder] 193 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:227:5: warning: when initialized here [-Wreorder] 227 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:288:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 288 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:289:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 289 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:328:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 328 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:329:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 329 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:408:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 408 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:409:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 409 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:449:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 449 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:450:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 450 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In member function ‘virtual scitbx::af::shared > dxtbx::model::PolychromaticBeam::get_s0_at_scan_points() const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:760:52: warning: left operand of comma operator has no effect [-Wunused-value] 760 | return scitbx::af::shared >(1, (0., 0., 0.)); | ^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:760:60: warning: right operand of comma operator has no effect [-Wunused-value] 760 | return scitbx::af::shared >(1, (0., 0., 0.)); | ^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h: In member function ‘void dxtbx::model::Panel::apply_untrusted_rectangle_mask(scitbx::af::ref >) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:435:36: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 435 | for (std::size_t y = y0; y < y1; ++y) { | ~~^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:436:38: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 436 | for (std::size_t x = x0; x < x1; ++x) { | ~~^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:288:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 288 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:289:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 289 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:328:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 328 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:329:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 329 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:408:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 408 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:409:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 409 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:449:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 449 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:450:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 450 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h: In member function ‘void dxtbx::model::Panel::apply_untrusted_rectangle_mask(scitbx::af::ref >) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:435:36: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 435 | for (std::size_t y = y0; y < y1; ++y) { | ~~^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:436:38: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 436 | for (std::size_t x = x0; x < x1; ++x) { | ~~^~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:22, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/to_from_dict.h:20, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/panel.cc:21: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h: In function ‘scitbx::af::shared dxtbx::model::get_mod2pi_angles_in_range(scitbx::vec2, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h:89:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 89 | for (std::size_t i = 0; i < n_angles; ++i) { | ~~^~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/accessors/flex_grid.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/flex_types.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/panel.cc:18: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In constructor ‘dxtbx::model::Scan::Scan(scitbx::vec2, dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >&, int)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:148:44: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 148 | DXTBX_ASSERT(properties_table.size() == num_images_); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:148:7: note: in expansion of macro ‘DXTBX_ASSERT’ 148 | DXTBX_ASSERT(properties_table.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_properties(dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:242:37: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 242 | DXTBX_ASSERT(new_table.size() == num_images_); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:242:7: note: in expansion of macro ‘DXTBX_ASSERT’ 242 | DXTBX_ASSERT(new_table.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_oscillation(scitbx::vec2)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:397:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 397 | for (std::size_t i = 0; i < num_images_; ++i) { | ~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_exposure_times(scitbx::af::shared)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:411:42: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 411 | DXTBX_ASSERT(exposure_times.size() == num_images_); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:411:7: note: in expansion of macro ‘DXTBX_ASSERT’ 411 | DXTBX_ASSERT(exposure_times.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_epochs(const scitbx::af::shared&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:417:34: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 417 | DXTBX_ASSERT(epochs.size() == num_images_); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:417:7: note: in expansion of macro ‘DXTBX_ASSERT’ 417 | DXTBX_ASSERT(epochs.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::append(const dxtbx::model::Scan&, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:556:39: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 556 | DXTBX_ASSERT(properties_.size() == num_images_); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:556:7: note: in expansion of macro ‘DXTBX_ASSERT’ 556 | DXTBX_ASSERT(properties_.size() == num_images_); | ^~~~~~~~~~~~ g++ -o dxtbx/src/dxtbx/model/boost_python/scan_helpers.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/base/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx -I/usr/include/python3.13 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/scan_helpers.cc cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/scan_helpers.cc:16: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h: In function ‘scitbx::af::shared dxtbx::model::get_mod2pi_angles_in_range(scitbx::vec2, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h:89:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 89 | for (std::size_t i = 0; i < n_angles; ++i) { | ~~^~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:22, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/scan.cc:19: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h: In function ‘scitbx::af::shared dxtbx::model::get_mod2pi_angles_in_range(scitbx::vec2, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h:89:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 89 | for (std::size_t i = 0; i < n_angles; ++i) { | ~~^~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/vec2.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:17: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In constructor ‘dxtbx::model::Scan::Scan(scitbx::vec2, dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >&, int)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:148:44: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 148 | DXTBX_ASSERT(properties_table.size() == num_images_); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:148:7: note: in expansion of macro ‘DXTBX_ASSERT’ 148 | DXTBX_ASSERT(properties_table.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_properties(dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:242:37: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 242 | DXTBX_ASSERT(new_table.size() == num_images_); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:242:7: note: in expansion of macro ‘DXTBX_ASSERT’ 242 | DXTBX_ASSERT(new_table.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_oscillation(scitbx::vec2)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:397:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 397 | for (std::size_t i = 0; i < num_images_; ++i) { | ~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_exposure_times(scitbx::af::shared)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:411:42: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 411 | DXTBX_ASSERT(exposure_times.size() == num_images_); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:411:7: note: in expansion of macro ‘DXTBX_ASSERT’ 411 | DXTBX_ASSERT(exposure_times.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_epochs(const scitbx::af::shared&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:417:34: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 417 | DXTBX_ASSERT(epochs.size() == num_images_); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:417:7: note: in expansion of macro ‘DXTBX_ASSERT’ 417 | DXTBX_ASSERT(epochs.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::append(const dxtbx::model::Scan&, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:556:39: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 556 | DXTBX_ASSERT(properties_.size() == num_images_); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:556:7: note: in expansion of macro ‘DXTBX_ASSERT’ 556 | DXTBX_ASSERT(properties_.size() == num_images_); | ^~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/to_from_dict.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/scan.cc:20: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam()’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:551:18: warning: ‘scitbx::vec3 dxtbx::model::Beam::direction_’ [-Wreorder] 551 | vec3 direction_; | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:93:5: warning: when initialized here [-Wreorder] 93 | Beam() | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:126:5: warning: when initialized here [-Wreorder] 126 | Beam(vec3 direction, double wavelength) | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:165:5: warning: when initialized here [-Wreorder] 165 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:193:5: warning: when initialized here [-Wreorder] 193 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:227:5: warning: when initialized here [-Wreorder] 227 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In member function ‘virtual scitbx::af::shared > dxtbx::model::PolychromaticBeam::get_s0_at_scan_points() const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:760:52: warning: left operand of comma operator has no effect [-Wunused-value] 760 | return scitbx::af::shared >(1, (0., 0., 0.)); | ^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:760:60: warning: right operand of comma operator has no effect [-Wunused-value] 760 | return scitbx::af::shared >(1, (0., 0., 0.)); | ^~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:22, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/detector.h:25, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/to_from_dict.h:18: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:288:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 288 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:289:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 289 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:328:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 328 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:329:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 329 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:408:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 408 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:409:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 409 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:449:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 449 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:450:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 450 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h: In member function ‘void dxtbx::model::Panel::apply_untrusted_rectangle_mask(scitbx::af::ref >) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:435:36: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 435 | for (std::size_t y = y0; y < y1; ++y) { | ~~^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:436:38: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 436 | for (std::size_t x = x0; x < x1; ++x) { | ~~^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/scan.cc: In static member function ‘static void dxtbx::model::boost_python::ScanPickleSuite::setstate(dxtbx::model::Scan&, boost::python::tuple)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/scan.cc:162:41: warning: comparison of integer expressions of different signedness: ‘boost::python::ssize_t’ {aka ‘long int’} and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 162 | DXTBX_ASSERT(len(properties_dict) == ncols); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/scan.cc:162:7: note: in expansion of macro ‘DXTBX_ASSERT’ 162 | DXTBX_ASSERT(len(properties_dict) == ncols); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/scan.cc: In function ‘boost::python::dict dxtbx::model::boost_python::MaptoPythonDict(dxtbx::model::ExpImgRangeMap)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/scan.cc:187:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 187 | for (int k = 0; k < val.size(); ++k) { | ~~^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/scan.cc: In function ‘boost::python::list dxtbx::model::boost_python::get_valid_image_ranges(dxtbx::model::Scan&, std::string)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/scan.cc:374:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 374 | for (int k = 0; k < ranges.size(); ++k) { | ~~^~~~~~~~~~~~~~~ g++ -o dxtbx/src/dxtbx/model/boost_python/spectrum.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/base/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cbflib_adaptbx -I/usr/include/python3.13 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/spectrum.cc cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:24: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/array_family/flex_table_suite.h: In instantiation of ‘T* dxtbx::af::flex_table_suite::make_flex_table(boost::python::list) [with T = dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/array_family/flex_table_suite.h:1233:42: required from ‘static dxtbx::af::flex_table_suite::flex_table_wrapper::class_type dxtbx::af::flex_table_suite::flex_table_wrapper::wrap(const char*) [with T = dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >; class_type = boost::python::class_, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >, boost::python::detail::not_specified, boost::python::detail::not_specified, boost::python::detail::not_specified>]’ 1233 | .def("__init__", make_constructor(&make_flex_table)) | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/scan.cc:177:29: required from ‘static dxtbx::model::boost_python::scan_property_table_wrapper::class_type dxtbx::model::boost_python::scan_property_table_wrapper::wrap(const char*) [with T = dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >; class_type = boost::python::class_, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >, boost::python::detail::not_specified, boost::python::detail::not_specified, boost::python::detail::not_specified>]’ 177 | return base_type::wrap(name); | ~~~~~~~~~~~~~~~^~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/scan.cc:584:72: required from here 584 | scan_property_table_wrapper >::wrap( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 585 | "scan_property_table"); | ~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/array_family/flex_table_suite.h:416:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 416 | for (std::size_t i = 0; i < len(columns); ++i) { | ~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/array_family/flex_table_suite.h: In instantiation of ‘void dxtbx::af::flex_table_suite::setitem_row(T&, typename T::size_type, boost::python::dict) [with T = dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >; typename T::size_type = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/array_family/flex_table_suite.h:1252:13: required from ‘static dxtbx::af::flex_table_suite::flex_table_wrapper::class_type dxtbx::af::flex_table_suite::flex_table_wrapper::wrap(const char*) [with T = dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >; class_type = boost::python::class_, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >, boost::python::detail::not_specified, boost::python::detail::not_specified, boost::python::detail::not_specified>]’ 1232 | flex_table_class.def(init()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1233 | .def("__init__", make_constructor(&make_flex_table)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1234 | .def("types", &types) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1235 | .def("has_key", &has_key) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1236 | .def("clear", &flex_table_type::clear) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1237 | .def("empty", &flex_table_type::empty) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1238 | .def("resize", &flex_table_type::resize) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1239 | .def("append", &append) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1240 | .def("insert", &insert) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1241 | .def("extend", &extend) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1242 | .def("update", &update) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1243 | .def("nrows", &flex_table_type::nrows) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1244 | .def("ncols", &flex_table_type::ncols) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1245 | .def("is_consistent", &flex_table_type::is_consistent) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1246 | .def("size", &flex_table_type::size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1247 | .def("__len__", &flex_table_type::size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1248 | .def("__contains__", &has_key) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1249 | .def("__getitem__", &getitem_column) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1250 | .def("__getitem__", &getitem_row) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1251 | .def("__getitem__", &getitem_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1252 | .def("__setitem__", &setitem_row) | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/scan.cc:177:29: required from ‘static dxtbx::model::boost_python::scan_property_table_wrapper::class_type dxtbx::model::boost_python::scan_property_table_wrapper::wrap(const char*) [with T = dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >; class_type = boost::python::class_, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >, boost::python::detail::not_specified, boost::python::detail::not_specified, boost::python::detail::not_specified>]’ 177 | return base_type::wrap(name); | ~~~~~~~~~~~~~~~^~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/scan.cc:584:72: required from here 584 | scan_property_table_wrapper >::wrap( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 585 | "scan_property_table"); | ~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/array_family/flex_table_suite.h:525:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 525 | for (std::size_t i = 0; i < len(row); ++i) { | ~~^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/array_family/flex_table_suite.h: In instantiation of ‘T dxtbx::af::flex_table_suite::select_cols_tuple(const T&, boost::python::tuple) [with T = dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/array_family/flex_table_suite.h:1265:13: required from ‘static dxtbx::af::flex_table_suite::flex_table_wrapper::class_type dxtbx::af::flex_table_suite::flex_table_wrapper::wrap(const char*) [with T = dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >; class_type = boost::python::class_, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >, boost::python::detail::not_specified, boost::python::detail::not_specified, boost::python::detail::not_specified>]’ 1232 | flex_table_class.def(init()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1233 | .def("__init__", make_constructor(&make_flex_table)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1234 | .def("types", &types) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1235 | .def("has_key", &has_key) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1236 | .def("clear", &flex_table_type::clear) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1237 | .def("empty", &flex_table_type::empty) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1238 | .def("resize", &flex_table_type::resize) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1239 | .def("append", &append) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1240 | .def("insert", &insert) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1241 | .def("extend", &extend) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1242 | .def("update", &update) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1243 | .def("nrows", &flex_table_type::nrows) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1244 | .def("ncols", &flex_table_type::ncols) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1245 | .def("is_consistent", &flex_table_type::is_consistent) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1246 | .def("size", &flex_table_type::size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1247 | .def("__len__", &flex_table_type::size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1248 | .def("__contains__", &has_key) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1249 | .def("__getitem__", &getitem_column) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1250 | .def("__getitem__", &getitem_row) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1251 | .def("__getitem__", &getitem_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1252 | .def("__setitem__", &setitem_row) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1253 | .def("__setitem__", &setitem_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1254 | .def("__delitem__", &delitem_column) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1255 | .def("__delitem__", &delitem_row) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1256 | .def("__delitem__", &delitem_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1257 | .def("__iter__", make_iterator >::range()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1258 | .def("cols", make_iterator >::range()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1259 | .def("items", make_iterator >::range()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1260 | .def("rows", make_iterator >::range()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1261 | .def("keys", make_iterator >::range()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1262 | .def("select", &select_rows_index) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1263 | .def("select", &select_rows_flags) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1264 | .def("select", &select_cols_keys) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1265 | .def("select", &select_cols_tuple) | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/scan.cc:177:29: required from ‘static dxtbx::model::boost_python::scan_property_table_wrapper::class_type dxtbx::model::boost_python::scan_property_table_wrapper::wrap(const char*) [with T = dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >; class_type = boost::python::class_, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >, boost::python::detail::not_specified, boost::python::detail::not_specified, boost::python::detail::not_specified>]’ 177 | return base_type::wrap(name); | ~~~~~~~~~~~~~~~^~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/scan.cc:584:72: required from here 584 | scan_property_table_wrapper >::wrap( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 585 | "scan_property_table"); | ~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/array_family/flex_table_suite.h:747:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 747 | for (std::size_t i = 0; i < len(keys); ++i) { | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/array_family/flex_table_suite.h: In instantiation of ‘void dxtbx::af::flex_table_suite::set_selected_cols_tuple(T&, boost::python::tuple, const T&) [with T = dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/array_family/flex_table_suite.h:1269:13: required from ‘static dxtbx::af::flex_table_suite::flex_table_wrapper::class_type dxtbx::af::flex_table_suite::flex_table_wrapper::wrap(const char*) [with T = dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >; class_type = boost::python::class_, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >, boost::python::detail::not_specified, boost::python::detail::not_specified, boost::python::detail::not_specified>]’ 1232 | flex_table_class.def(init()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1233 | .def("__init__", make_constructor(&make_flex_table)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1234 | .def("types", &types) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1235 | .def("has_key", &has_key) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1236 | .def("clear", &flex_table_type::clear) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1237 | .def("empty", &flex_table_type::empty) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1238 | .def("resize", &flex_table_type::resize) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1239 | .def("append", &append) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1240 | .def("insert", &insert) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1241 | .def("extend", &extend) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1242 | .def("update", &update) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1243 | .def("nrows", &flex_table_type::nrows) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1244 | .def("ncols", &flex_table_type::ncols) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1245 | .def("is_consistent", &flex_table_type::is_consistent) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1246 | .def("size", &flex_table_type::size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1247 | .def("__len__", &flex_table_type::size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1248 | .def("__contains__", &has_key) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1249 | .def("__getitem__", &getitem_column) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1250 | .def("__getitem__", &getitem_row) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1251 | .def("__getitem__", &getitem_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1252 | .def("__setitem__", &setitem_row) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1253 | .def("__setitem__", &setitem_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1254 | .def("__delitem__", &delitem_column) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1255 | .def("__delitem__", &delitem_row) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1256 | .def("__delitem__", &delitem_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1257 | .def("__iter__", make_iterator >::range()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1258 | .def("cols", make_iterator >::range()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1259 | .def("items", make_iterator >::range()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1260 | .def("rows", make_iterator >::range()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1261 | .def("keys", make_iterator >::range()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1262 | .def("select", &select_rows_index) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1263 | .def("select", &select_rows_flags) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1264 | .def("select", &select_cols_keys) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1265 | .def("select", &select_cols_tuple) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1266 | .def("set_selected", &set_selected_rows_index) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1267 | .def("set_selected", &set_selected_rows_flags) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1268 | .def("set_selected", &set_selected_cols_keys) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1269 | .def("set_selected", &set_selected_cols_tuple) | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/scan.cc:177:29: required from ‘static dxtbx::model::boost_python::scan_property_table_wrapper::class_type dxtbx::model::boost_python::scan_property_table_wrapper::wrap(const char*) [with T = dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >; class_type = boost::python::class_, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >, boost::python::detail::not_specified, boost::python::detail::not_specified, boost::python::detail::not_specified>]’ 177 | return base_type::wrap(name); | ~~~~~~~~~~~~~~~^~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/scan.cc:584:72: required from here 584 | scan_property_table_wrapper >::wrap( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 585 | "scan_property_table"); | ~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/array_family/flex_table_suite.h:838:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 838 | for (std::size_t i = 0; i < len(keys); ++i) { | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/array_family/flex_table_suite.h: In instantiation of ‘void dxtbx::af::flex_table_suite::del_selected_cols_tuple(T&, boost::python::tuple) [with T = dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/array_family/flex_table_suite.h:1273:13: required from ‘static dxtbx::af::flex_table_suite::flex_table_wrapper::class_type dxtbx::af::flex_table_suite::flex_table_wrapper::wrap(const char*) [with T = dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >; class_type = boost::python::class_, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >, boost::python::detail::not_specified, boost::python::detail::not_specified, boost::python::detail::not_specified>]’ 1232 | flex_table_class.def(init()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1233 | .def("__init__", make_constructor(&make_flex_table)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1234 | .def("types", &types) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1235 | .def("has_key", &has_key) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1236 | .def("clear", &flex_table_type::clear) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1237 | .def("empty", &flex_table_type::empty) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1238 | .def("resize", &flex_table_type::resize) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1239 | .def("append", &append) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1240 | .def("insert", &insert) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1241 | .def("extend", &extend) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1242 | .def("update", &update) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1243 | .def("nrows", &flex_table_type::nrows) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1244 | .def("ncols", &flex_table_type::ncols) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1245 | .def("is_consistent", &flex_table_type::is_consistent) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1246 | .def("size", &flex_table_type::size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1247 | .def("__len__", &flex_table_type::size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1248 | .def("__contains__", &has_key) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1249 | .def("__getitem__", &getitem_column) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1250 | .def("__getitem__", &getitem_row) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1251 | .def("__getitem__", &getitem_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1252 | .def("__setitem__", &setitem_row) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1253 | .def("__setitem__", &setitem_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1254 | .def("__delitem__", &delitem_column) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1255 | .def("__delitem__", &delitem_row) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1256 | .def("__delitem__", &delitem_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1257 | .def("__iter__", make_iterator >::range()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1258 | .def("cols", make_iterator >::range()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1259 | .def("items", make_iterator >::range()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1260 | .def("rows", make_iterator >::range()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1261 | .def("keys", make_iterator >::range()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1262 | .def("select", &select_rows_index) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1263 | .def("select", &select_rows_flags) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1264 | .def("select", &select_cols_keys) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1265 | .def("select", &select_cols_tuple) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1266 | .def("set_selected", &set_selected_rows_index) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1267 | .def("set_selected", &set_selected_rows_flags) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1268 | .def("set_selected", &set_selected_cols_keys) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1269 | .def("set_selected", &set_selected_cols_tuple) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1270 | .def("del_selected", &del_selected_rows_index) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1271 | .def("del_selected", &del_selected_rows_flags) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1272 | .def("del_selected", &del_selected_cols_keys) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1273 | .def("del_selected", &del_selected_cols_tuple) | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/scan.cc:177:29: required from ‘static dxtbx::model::boost_python::scan_property_table_wrapper::class_type dxtbx::model::boost_python::scan_property_table_wrapper::wrap(const char*) [with T = dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >; class_type = boost::python::class_, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >, boost::python::detail::not_specified, boost::python::detail::not_specified, boost::python::detail::not_specified>]’ 177 | return base_type::wrap(name); | ~~~~~~~~~~~~~~~^~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/scan.cc:584:72: required from here 584 | scan_property_table_wrapper >::wrap( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 585 | "scan_property_table"); | ~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/array_family/flex_table_suite.h:890:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 890 | for (std::size_t i = 0; i < len(keys); ++i) { | ~~^~~~~~~~~~~ g++ -o lib/libcbf-private.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libcbf-private.so.0 cbflib_adaptbx/detectors/mar_adaptor.o cbflib_adaptbx/detectors/cbf_adaptor.o cbflib_adaptbx/detectors/cbf_byte_offset_optimized.o cbflib_adaptbx/detectors/buffer_based_service.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lboost_thread -lhdf5 -lcbf Create symlinks for: 'lib/libcbf-private.so.0.0.1' 'lib/libcbf-private.so.0'->'lib/libcbf-private.so.0.0.1' 'lib/libcbf-private.so'->'lib/libcbf-private.so.0.0.1' g++ -o exe_dev/cbflib.tst_memory -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread cbflib_adaptbx/detectors/tst_memory.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lcbf -lcbf-private -lm -lhdf5 g++ -o exe_dev/cctbx.convert_ccp4_symop_lib -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread cctbx/examples/convert_ccp4_symop_lib.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx_sgtbx_asu -lcctbx -lboost_thread -lm g++ -o exe_dev/cctbx.find_distances -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread cctbx/examples/find_distances.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx_sgtbx_asu -lcctbx -lboost_thread -lm g++ -o exe_dev/cctbx.getting_started -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread cctbx/examples/getting_started.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx_sgtbx_asu -lcctbx -lboost_thread -lm g++ -o exe_dev/cctbx.lattice_symmetry -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread cctbx/examples/lattice_symmetry.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx_sgtbx_asu -lcctbx -lboost_thread -lm g++ -o exe_dev/cctbx.sym_equiv_sites -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread cctbx/examples/sym_equiv_sites.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx_sgtbx_asu -lcctbx -lboost_thread -lm g++ -o exe_dev/cctbx.sys_abs_equiv_space_groups -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread cctbx/examples/sys_abs_equiv_space_groups.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx_sgtbx_asu -lcctbx -lboost_thread -lm g++ -o fable/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/font_ucs_10x20.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 gltbx/font_ucs_10x20.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/font_ucs_8x13.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 gltbx/font_ucs_8x13.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/font_ucs_9x15.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 gltbx/font_ucs_9x15.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/fonts_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/gltbx/fonts_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/to_from_dict.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/spectrum.cc:10: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam()’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:551:18: warning: ‘scitbx::vec3 dxtbx::model::Beam::direction_’ [-Wreorder] 551 | vec3 direction_; | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:93:5: warning: when initialized here [-Wreorder] 93 | Beam() | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:126:5: warning: when initialized here [-Wreorder] 126 | Beam(vec3 direction, double wavelength) | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:165:5: warning: when initialized here [-Wreorder] 165 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:193:5: warning: when initialized here [-Wreorder] 193 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:227:5: warning: when initialized here [-Wreorder] 227 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In member function ‘virtual scitbx::af::shared > dxtbx::model::PolychromaticBeam::get_s0_at_scan_points() const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:760:52: warning: left operand of comma operator has no effect [-Wunused-value] 760 | return scitbx::af::shared >(1, (0., 0., 0.)); | ^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:760:60: warning: right operand of comma operator has no effect [-Wunused-value] 760 | return scitbx::af::shared >(1, (0., 0., 0.)); | ^~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:22, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/detector.h:25, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/to_from_dict.h:18: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:288:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 288 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:289:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 289 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:328:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 328 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:329:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 329 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:408:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 408 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:409:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 409 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:449:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 449 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:450:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 450 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h: In member function ‘void dxtbx::model::Panel::apply_untrusted_rectangle_mask(scitbx::af::ref >) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:435:36: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 435 | for (std::size_t y = y0; y < y1; ++y) { | ~~^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:436:38: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 436 | for (std::size_t x = x0; x < x1; ++x) { | ~~^~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:22, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/to_from_dict.h:20: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h: In function ‘scitbx::af::shared dxtbx::model::get_mod2pi_angles_in_range(scitbx::vec2, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h:89:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 89 | for (std::size_t i = 0; i < n_angles; ++i) { | ~~^~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/ext.cpp:5: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/utils/equivalence.hpp: In member function ‘void fem::utils::equivalence::array_alignment::infer_diffs0_from_diff_matrix()’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/utils/equivalence.hpp:93:28: warning: comparison of integer expressions of different signedness: ‘const fem::ssize_t’ {aka ‘const long int’} and ‘fem::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 93 | if (c0e[0] == i0) { | ~~~~~~~^~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/utils/string_to_double.hpp:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/utils/string_to_double_fmt.hpp:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/ext.cpp:6: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/utils/simple_streams.hpp: In member function ‘virtual void fem::utils::simple_ostream_to_char_ptr_and_size::put(char)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/utils/simple_streams.hpp:63:13: warning: comparison of integer expressions of different signedness: ‘fem::ssize_t’ {aka ‘long int’} and ‘fem::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 63 | if (i < sz) s[i++] = c; | ~~^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/utils/string_to_double.hpp: In member function ‘void fem::utils::string_to_double::convert(fem::utils::simple_istream&, unsigned int, int)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/utils/string_to_double.hpp:115:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const unsigned int’ [-Wsign-compare] 115 | if (dexp <= ad_hoc_limits::max_digit_count) { | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/utils/string.hpp:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/str_ref.hpp:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/format.hpp:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/ext.cpp:4: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/ext.cpp: In function ‘unsigned int fable::ext::get_code_stop(const boost::python::api::object&, int)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/ext.cpp:24:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 24 | TBXX_ASSERT(stop <= len_code); | ~~~~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/tbxx/error_utils.hpp:59:9: note: in definition of macro ‘TBXX_ASSERT’ 59 | if (!(condition)) { \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/ext.cpp: In function ‘int fable::ext::floating_point_scan_after_dot(const boost::python::api::object&, unsigned int, int)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/ext.cpp:71:11: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 71 | if (i < code_stop) { | ~~^~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:31, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/spectrum.h:9, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/spectrum.cc:9: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In constructor ‘dxtbx::model::Scan::Scan(scitbx::vec2, dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >&, int)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:148:44: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 148 | DXTBX_ASSERT(properties_table.size() == num_images_); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:148:7: note: in expansion of macro ‘DXTBX_ASSERT’ 148 | DXTBX_ASSERT(properties_table.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_properties(dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:242:37: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 242 | DXTBX_ASSERT(new_table.size() == num_images_); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:242:7: note: in expansion of macro ‘DXTBX_ASSERT’ 242 | DXTBX_ASSERT(new_table.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_oscillation(scitbx::vec2)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:397:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 397 | for (std::size_t i = 0; i < num_images_; ++i) { | ~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_exposure_times(scitbx::af::shared)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:411:42: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 411 | DXTBX_ASSERT(exposure_times.size() == num_images_); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:411:7: note: in expansion of macro ‘DXTBX_ASSERT’ 411 | DXTBX_ASSERT(exposure_times.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_epochs(const scitbx::af::shared&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:417:34: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 417 | DXTBX_ASSERT(epochs.size() == num_images_); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:417:7: note: in expansion of macro ‘DXTBX_ASSERT’ 417 | DXTBX_ASSERT(epochs.size() == num_images_); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::append(const dxtbx::model::Scan&, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:556:39: warning: comparison of integer expressions of different signedness: ‘dxtbx::af::flex_table, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > > >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 556 | DXTBX_ASSERT(properties_.size() == num_images_); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:556:7: note: in expansion of macro ‘DXTBX_ASSERT’ 556 | DXTBX_ASSERT(properties_.size() == num_images_); | ^~~~~~~~~~~~ g++ -o gltbx/gl_defines_00_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 gltbx/gl_defines_00_bpl.cpp g++ -o gltbx/gl_defines_01_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 gltbx/gl_defines_01_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/gl_defines_02_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 gltbx/gl_defines_02_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/gl_defines_03_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 gltbx/gl_defines_03_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/gl_defines_04_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 gltbx/gl_defines_04_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/gl_defines_05_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 gltbx/gl_defines_05_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/gl_defines_06_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 gltbx/gl_defines_06_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/gl_defines_07_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 gltbx/gl_defines_07_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/gl_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/gltbx/gl_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/gl_functions_00_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 gltbx/gl_functions_00_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:23: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/array_family/flex_table.h: In member function ‘void dxtbx::af::flex_table::insert_visitor::operator()(T&) const [with T = scitbx::af::shared >; VarientType = boost::variant, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > >]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/array_family/flex_table.h:218:17: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] 218 | v.insert(v.begin() + pos, n, typename T::value_type()); | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:307, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/scan.h:18: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/detail/push_back_etc.h:124:12: note: by argument 4 of type ‘const scitbx::vec2&’ to ‘void scitbx::af::shared_plain::insert(ElementType*, const size_type&, const ElementType&) [with ElementType = scitbx::vec2]’ declared here 124 | void insert(ElementType* pos, size_type const& n, ElementType const& x) { | ^~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/array_family/flex_table.h:218:50: note: ‘’ declared here 218 | v.insert(v.begin() + pos, n, typename T::value_type()); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/array_family/flex_table.h: In member function ‘void dxtbx::af::flex_table::insert_visitor::operator()(T&) const [with T = scitbx::af::shared >; VarientType = boost::variant, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_item, scitbx::af::shared >, boost::mpl::l_end> > > > > > > >]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/array_family/flex_table.h:218:17: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] 218 | v.insert(v.begin() + pos, n, typename T::value_type()); | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/detail/push_back_etc.h:124:12: note: by argument 4 of type ‘const scitbx::vec3&’ to ‘void scitbx::af::shared_plain::insert(ElementType*, const size_type&, const ElementType&) [with ElementType = scitbx::vec3]’ declared here 124 | void insert(ElementType* pos, size_type const& n, ElementType const& x) { | ^~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/array_family/flex_table.h:218:50: note: ‘’ declared here 218 | v.insert(v.begin() + pos, n, typename T::value_type()); | ^~~~~~~~~~~~ g++ -o gltbx/gl_functions_01_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 gltbx/gl_functions_01_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/gl_functions_02_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 gltbx/gl_functions_02_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/array_family/flex_table_suite.h: In function ‘void dxtbx::af::flex_table_suite::type_appender::operator()(U) [with U = scitbx::af::shared >]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/array_family/flex_table_suite.h:905:54: warning: ‘a’ may be used uninitialized [-Wmaybe-uninitialized] 905 | type_list.append(object(handle<>(PyObject_Type(object(a).ptr())))); | ^~~~~~~~~ In file included from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/boost_python/scan.cc:11: /usr/include/boost/python/object_core.hpp:246:16: note: by argument 2 of type ‘const scitbx::vec2&’ to ‘boost::python::api::object::object(const T&) [with T = scitbx::vec2]’ declared here 246 | explicit object(T const& x) | ^~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/array_family/flex_table_suite.h:904:30: note: ‘a’ declared here 904 | typename U::value_type a = typename U::value_type(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/array_family/flex_table_suite.h: In function ‘void dxtbx::af::flex_table_suite::type_appender::operator()(U) [with U = scitbx::af::shared >]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/array_family/flex_table_suite.h:905:54: warning: ‘a’ may be used uninitialized [-Wmaybe-uninitialized] 905 | type_list.append(object(handle<>(PyObject_Type(object(a).ptr())))); | ^~~~~~~~~ /usr/include/boost/python/object_core.hpp:246:16: note: by argument 2 of type ‘const scitbx::vec3&’ to ‘boost::python::api::object::object(const T&) [with T = scitbx::vec3]’ declared here 246 | explicit object(T const& x) | ^~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/array_family/flex_table_suite.h:904:30: note: ‘a’ declared here 904 | typename U::value_type a = typename U::value_type(); | ^ g++ -o gltbx/gl_functions_03_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 gltbx/gl_functions_03_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/gl_functions_04_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 gltbx/gl_functions_04_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/gl_functions_05_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 gltbx/gl_functions_05_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/gl_functions_06_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 gltbx/gl_functions_06_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/gl_functions_07_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 gltbx/gl_functions_07_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/gl_functions_08_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 gltbx/gl_functions_08_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/gl_functions_09_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 gltbx/gl_functions_09_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/gl_functions_10_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 gltbx/gl_functions_10_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/gl_functions_11_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 gltbx/gl_functions_11_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/gl_functions_12_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 gltbx/gl_functions_12_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/gl_functions_13_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 gltbx/gl_functions_13_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/gl_functions_14_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 gltbx/gl_functions_14_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/gl_functions_15_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 gltbx/gl_functions_15_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/glu_defines_00_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 gltbx/glu_defines_00_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/glu_defines_01_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 gltbx/glu_defines_01_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/glu_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/gltbx/glu_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/glu_functions_00_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 gltbx/glu_functions_00_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/glu_functions_01_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 gltbx/glu_functions_01_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/glu_functions_02_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 gltbx/glu_functions_02_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/glu_functions_03_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 gltbx/glu_functions_03_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/quadrics_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/gltbx/quadrics_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/util_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/gltbx/util_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/viewer_utils_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/gltbx/viewer_utils_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/ccp4_map/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -DMSETS=32 -DMXTALS=32 -DMCOLUMNS=128 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/ccp4_map/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/cif/boost_python/cif_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/cif/boost_python/cif_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/detectors/bruker.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/detectors/bruker.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/detectors/bruker_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/detectors/bruker_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/ccp4_map/ext.cpp: In function ‘void iotbx::ccp4_map::write_ccp4_map_set_grid(const std::string&, const cctbx::uctbx::unit_cell&, const cctbx::sgtbx::space_group&, const scitbx::af::int3&, const scitbx::af::const_ref >&, const scitbx::af::const_ref >&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/ccp4_map/ext.cpp:178:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 178 | for (int i = 0; i < labels.size(); i++) { | ~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/ccp4_map/ext.cpp:213:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 213 | for (int i = 0; i < data_ref.accessor()[0]; i++) { /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/ccp4_map/ext.cpp:215:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 215 | for (int j = 0; j < data_ref.accessor()[1]; j++) { /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/ccp4_map/ext.cpp:216:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 216 | for (int k = 0; k < data_ref.accessor()[2]; k++) { /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/ccp4_map/ext.cpp: In function ‘void iotbx::ccp4_map::write_ccp4_map_box(const std::string&, const cctbx::uctbx::unit_cell&, const cctbx::sgtbx::space_group&, const scitbx::af::const_ref >&, const scitbx::af::const_ref >&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/ccp4_map/ext.cpp:245:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 245 | for (int i = 0; i < labels.size(); i++) { | ~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/ccp4_map/ext.cpp:278:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 278 | for (int i = 0; i < data_ref.accessor()[0]; i++) { /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/ccp4_map/ext.cpp:280:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 280 | for (int j = 0; j < data_ref.accessor()[1]; j++) { /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/ccp4_map/ext.cpp:281:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 281 | for (int k = 0; k < data_ref.accessor()[2]; k++) { /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/ccp4_map/ext.cpp: In function ‘void iotbx::ccp4_map::write_ccp4_map_p1_cell(const std::string&, const cctbx::uctbx::unit_cell&, const cctbx::sgtbx::space_group&, const scitbx::af::int3&, const scitbx::af::int3&, const scitbx::af::const_ref >&, const scitbx::af::const_ref >&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/ccp4_map/ext.cpp:311:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 311 | for (int i = 0; i < labels.size(); i++) { | ~~^~~~~~~~~~~~~~~ g++ -o iotbx/detectors/detectors_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/detectors/detectors_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/detectors/image_divider.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/detectors/image_divider.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/dsn6/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/dsn6/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/misc/boost_python/dtrek_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/misc/boost_python/dtrek_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/misc/boost_python/scalepack_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/misc/boost_python/scalepack_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/mtz/batch_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -DMSETS=32 -DMXTALS=32 -DMCOLUMNS=128 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/batch_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/mtz/column.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DMSETS=32 -DMXTALS=32 -DMCOLUMNS=128 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/column.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/mtz/column_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -DMSETS=32 -DMXTALS=32 -DMCOLUMNS=128 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/column_bpl.cpp In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/mat3.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/sym_mat3.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/rot_mx.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/rt_mx.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/change_of_basis_op.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tr_group.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/space_group.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:12, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/crystal.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/dataset.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/column.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/column.cpp:1: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h: In member function ‘void iotbx::mtz::object::delete_reflections(const scitbx::af::const_ref&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:591:30: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] 591 | IOTBX_ASSERT(iref[0] < oldsize); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:591:9: note: in expansion of macro ‘IOTBX_ASSERT’ 591 | IOTBX_ASSERT(iref[0] < oldsize); | ^~~~~~~~~~~~ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:594:32: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] 594 | IOTBX_ASSERT(iref[i] < oldsize); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:594:11: note: in expansion of macro ‘IOTBX_ASSERT’ 594 | IOTBX_ASSERT(iref[i] < oldsize); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/column.cpp: In member function ‘void iotbx::mtz::column::set_reals(const scitbx::af::const_ref&, const scitbx::af::const_ref&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/column.cpp:253:48: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 253 | IOTBX_ASSERT(mtz_reflection_indices.size() <= nref_at_entry); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/column.cpp:253:5: note: in expansion of macro ‘IOTBX_ASSERT’ 253 | IOTBX_ASSERT(mtz_reflection_indices.size() <= nref_at_entry); | ^~~~~~~~~~~~ g++ -o iotbx/mtz/crystal.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DMSETS=32 -DMXTALS=32 -DMCOLUMNS=128 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/crystal.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/mat3.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/sym_mat3.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/rot_mx.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/rt_mx.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/change_of_basis_op.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tr_group.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/space_group.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:12, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/crystal.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/dataset.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/batch.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/batch_bpl.cpp:6: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h: In member function ‘void iotbx::mtz::object::delete_reflections(const scitbx::af::const_ref&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:591:30: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] 591 | IOTBX_ASSERT(iref[0] < oldsize); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:591:9: note: in expansion of macro ‘IOTBX_ASSERT’ 591 | IOTBX_ASSERT(iref[0] < oldsize); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:594:32: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] 594 | IOTBX_ASSERT(iref[i] < oldsize); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:594:11: note: in expansion of macro ‘IOTBX_ASSERT’ 594 | IOTBX_ASSERT(iref[i] < oldsize); | ^~~~~~~~~~~~ In file included from /usr/include/boost/assert.hpp:64, from /usr/include/boost/smart_ptr/shared_array.hpp:21, from /usr/include/boost/shared_array.hpp:17, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/hendrickson_lattman.h:9, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:13: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = iotbx::mtz::batch; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ 130 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 131 | w_t, | ~~~~ 132 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/batch_bpl.cpp:78:60: required from here 78 | scitbx::af::boost_python::shared_wrapper::wrap( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 79 | "shared_batch"); | ~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ g++ -o iotbx/mtz/crystal_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -DMSETS=32 -DMXTALS=32 -DMCOLUMNS=128 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/crystal_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/mtz/dataset.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DMSETS=32 -DMXTALS=32 -DMCOLUMNS=128 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/dataset.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/mat3.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/sym_mat3.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/rot_mx.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/rt_mx.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/change_of_basis_op.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tr_group.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/space_group.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:12, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/crystal.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/dataset.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/crystal.cpp:1: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h: In member function ‘void iotbx::mtz::object::delete_reflections(const scitbx::af::const_ref&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:591:30: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] 591 | IOTBX_ASSERT(iref[0] < oldsize); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:591:9: note: in expansion of macro ‘IOTBX_ASSERT’ 591 | IOTBX_ASSERT(iref[0] < oldsize); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:594:32: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] 594 | IOTBX_ASSERT(iref[i] < oldsize); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:594:11: note: in expansion of macro ‘IOTBX_ASSERT’ 594 | IOTBX_ASSERT(iref[i] < oldsize); | ^~~~~~~~~~~~ g++ -o iotbx/mtz/dataset_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -DMSETS=32 -DMXTALS=32 -DMCOLUMNS=128 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/dataset_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/mat3.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/sym_mat3.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/rot_mx.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/rt_mx.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/change_of_basis_op.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tr_group.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/space_group.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:12, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/crystal.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/dataset.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/column.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/column_bpl.cpp:6: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h: In member function ‘void iotbx::mtz::object::delete_reflections(const scitbx::af::const_ref&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:591:30: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] 591 | IOTBX_ASSERT(iref[0] < oldsize); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:591:9: note: in expansion of macro ‘IOTBX_ASSERT’ 591 | IOTBX_ASSERT(iref[0] < oldsize); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:594:32: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] 594 | IOTBX_ASSERT(iref[i] < oldsize); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:594:11: note: in expansion of macro ‘IOTBX_ASSERT’ 594 | IOTBX_ASSERT(iref[i] < oldsize); | ^~~~~~~~~~~~ In file included from /usr/include/boost/assert.hpp:64, from /usr/include/boost/smart_ptr/shared_array.hpp:21, from /usr/include/boost/shared_array.hpp:17, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/hendrickson_lattman.h:9, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:13: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = iotbx::mtz::column; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ 130 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 131 | w_t, | ~~~~ 132 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/column_bpl.cpp:76:60: required from here 76 | scitbx::af::boost_python::shared_wrapper::wrap( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 77 | "shared_column"); | ~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/mat3.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/sym_mat3.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/rot_mx.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/rt_mx.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/change_of_basis_op.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tr_group.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/space_group.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:12, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/crystal.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/dataset.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/batch.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/dataset.cpp:1: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h: In member function ‘void iotbx::mtz::object::delete_reflections(const scitbx::af::const_ref&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:591:30: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] 591 | IOTBX_ASSERT(iref[0] < oldsize); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:591:9: note: in expansion of macro ‘IOTBX_ASSERT’ 591 | IOTBX_ASSERT(iref[0] < oldsize); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:594:32: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] 594 | IOTBX_ASSERT(iref[i] < oldsize); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:594:11: note: in expansion of macro ‘IOTBX_ASSERT’ 594 | IOTBX_ASSERT(iref[i] < oldsize); | ^~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/mat3.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/sym_mat3.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/rot_mx.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/rt_mx.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/change_of_basis_op.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tr_group.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/space_group.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:12, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/crystal.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/dataset.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/crystal_bpl.cpp:6: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h: In member function ‘void iotbx::mtz::object::delete_reflections(const scitbx::af::const_ref&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:591:30: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] 591 | IOTBX_ASSERT(iref[0] < oldsize); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:591:9: note: in expansion of macro ‘IOTBX_ASSERT’ 591 | IOTBX_ASSERT(iref[0] < oldsize); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:594:32: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] 594 | IOTBX_ASSERT(iref[i] < oldsize); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:594:11: note: in expansion of macro ‘IOTBX_ASSERT’ 594 | IOTBX_ASSERT(iref[i] < oldsize); | ^~~~~~~~~~~~ g++ -o iotbx/mtz/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -DMSETS=32 -DMXTALS=32 -DMCOLUMNS=128 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/ext.cpp In file included from /usr/include/boost/assert.hpp:64, from /usr/include/boost/smart_ptr/shared_array.hpp:21, from /usr/include/boost/shared_array.hpp:17, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/hendrickson_lattman.h:9, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:13: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = iotbx::mtz::crystal; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ 130 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 131 | w_t, | ~~~~ 132 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/crystal_bpl.cpp:42:60: required from here 42 | scitbx::af::boost_python::shared_wrapper::wrap( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 43 | "shared_crystal"); | ~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/mtz/object.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DMSETS=32 -DMXTALS=32 -DMCOLUMNS=128 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/mtz/object_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -DMSETS=32 -DMXTALS=32 -DMCOLUMNS=128 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/hendrickson_lattman.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/sym_equiv.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/miller/asu.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.cpp:5: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h: In member function ‘void iotbx::mtz::object::delete_reflections(const scitbx::af::const_ref&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:591:30: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] 591 | IOTBX_ASSERT(iref[0] < oldsize); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:591:9: note: in expansion of macro ‘IOTBX_ASSERT’ 591 | IOTBX_ASSERT(iref[0] < oldsize); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:594:32: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] 594 | IOTBX_ASSERT(iref[i] < oldsize); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:594:11: note: in expansion of macro ‘IOTBX_ASSERT’ 594 | IOTBX_ASSERT(iref[i] < oldsize); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.cpp: In member function ‘void iotbx::mtz::object::replace_miller_indices(const scitbx::af::const_ref >&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.cpp:433:40: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 433 | IOTBX_ASSERT(miller_indices.size() == n_reflections()); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.cpp:433:5: note: in expansion of macro ‘IOTBX_ASSERT’ 433 | IOTBX_ASSERT(miller_indices.size() == n_reflections()); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.cpp:435:28: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 435 | for(int i_refl=0;i_refl iotbx::mtz::object::extract_integers(const scitbx::af::const_ref&, const char*) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.cpp:624:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 624 | for(int i=0;i iotbx::mtz::object::extract_reals(const scitbx::af::const_ref&, const char*) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.cpp:684:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 684 | for(int i=0;i&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:591:30: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] 591 | IOTBX_ASSERT(iref[0] < oldsize); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:591:9: note: in expansion of macro ‘IOTBX_ASSERT’ 591 | IOTBX_ASSERT(iref[0] < oldsize); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:594:32: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] 594 | IOTBX_ASSERT(iref[i] < oldsize); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:594:11: note: in expansion of macro ‘IOTBX_ASSERT’ 594 | IOTBX_ASSERT(iref[i] < oldsize); | ^~~~~~~~~~~~ In file included from /usr/include/boost/assert.hpp:64, from /usr/include/boost/smart_ptr/shared_array.hpp:21, from /usr/include/boost/shared_array.hpp:17, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/hendrickson_lattman.h:9, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:13: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = iotbx::mtz::dataset; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ 130 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 131 | w_t, | ~~~~ 132 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/dataset_bpl.cpp:43:60: required from here 43 | scitbx::af::boost_python::shared_wrapper::wrap( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 44 | "shared_dataset"); | ~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ g++ -o iotbx/pdb/atom_selection.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/atom_selection.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/mat3.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/sym_mat3.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/rot_mx.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/rt_mx.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/change_of_basis_op.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tr_group.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/space_group.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:12, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/crystal.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/dataset.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/batch.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object_bpl.cpp:9: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h: In member function ‘void iotbx::mtz::object::delete_reflections(const scitbx::af::const_ref&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:591:30: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] 591 | IOTBX_ASSERT(iref[0] < oldsize); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:591:9: note: in expansion of macro ‘IOTBX_ASSERT’ 591 | IOTBX_ASSERT(iref[0] < oldsize); | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:594:32: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] 594 | IOTBX_ASSERT(iref[i] < oldsize); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/mtz/object.h:594:11: note: in expansion of macro ‘IOTBX_ASSERT’ 594 | IOTBX_ASSERT(iref[i] < oldsize); | ^~~~~~~~~~~~ g++ -o iotbx/pdb/common_residue_names_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/common_residue_names_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/pdb/construct_hierarchy.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/construct_hierarchy.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/pdb/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/pdb/hierarchy.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hierarchy.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/pdb/hierarchy_atom_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hierarchy_atom_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/pdb/hierarchy_atoms.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hierarchy_atoms.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/pdb/hierarchy_atoms_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hierarchy_atoms_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hierarchy_atoms.cpp:1: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hierarchy_atoms.h:167:8: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 167 | std::auto_ptr | ^~~~~~~~ In file included from /usr/include/c++/15/memory:80, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/detail/misc.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny_plain.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:31, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/namespace.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hierarchy.h:8, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hierarchy_atoms.h:4: /usr/include/c++/15/bits/unique_ptr.h:58:28: note: declared here 58 | template class auto_ptr; | ^~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hierarchy_atoms.h:173:8: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 173 | std::auto_ptr | ^~~~~~~~ /usr/include/c++/15/bits/unique_ptr.h:58:28: note: declared here 58 | template class auto_ptr; | ^~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hierarchy_atoms.cpp:244:8: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 244 | std::auto_ptr | ^~~~~~~~ /usr/include/c++/15/bits/unique_ptr.h:58:28: note: declared here 58 | template class auto_ptr; | ^~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hierarchy_atoms.cpp: In function ‘std::auto_ptr iotbx::pdb::hierarchy::atoms::reset_tmp(const scitbx::af::const_ref&, int, int)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hierarchy_atoms.cpp:250:10: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 250 | std::auto_ptr result(new atom_tmp_sentinel(atoms)); | ^~~~~~~~ /usr/include/c++/15/bits/unique_ptr.h:58:28: note: declared here 58 | template class auto_ptr; | ^~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hierarchy_atoms.cpp: At global scope: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hierarchy_atoms.cpp:259:8: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 259 | std::auto_ptr | ^~~~~~~~ /usr/include/c++/15/bits/unique_ptr.h:58:28: note: declared here 58 | template class auto_ptr; | ^~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hierarchy_atoms.cpp: In function ‘std::auto_ptr iotbx::pdb::hierarchy::atoms::reset_tmp_for_occupancy_groups_simple(const scitbx::af::const_ref&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hierarchy_atoms.cpp:263:10: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 263 | std::auto_ptr result(new atom_tmp_sentinel(atoms)); | ^~~~~~~~ /usr/include/c++/15/bits/unique_ptr.h:58:28: note: declared here 58 | template class auto_ptr; | ^~~~~~~~ g++ -o iotbx/pdb/hierarchy_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hierarchy_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scatterer.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hierarchy_atoms_bpl.cpp:2: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 167 | std::auto_ptr | ^~~~~~~~ In file included from /usr/include/c++/15/memory:80, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/detail/misc.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny_plain.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/vec3.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/mat3.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/sym_mat3.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scatterer_flags.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scatterer.h:4: /usr/include/c++/15/bits/unique_ptr.h:58:28: note: declared here 58 | template class auto_ptr; | ^~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hierarchy_atoms.h:173:8: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 173 | std::auto_ptr | ^~~~~~~~ /usr/include/c++/15/bits/unique_ptr.h:58:28: note: declared here 58 | template class auto_ptr; | ^~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hierarchy_atoms_bpl.cpp: In function ‘void iotbx::pdb::hierarchy::atoms::bpl_wrap()’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hierarchy_atoms_bpl.cpp:84:17: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 84 | std::auto_ptr, | ^~~~~~~~ /usr/include/c++/15/bits/unique_ptr.h:58:28: note: declared here 58 | template class auto_ptr; | ^~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:6: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here 203 | new tensor_rank_3_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here 214 | new tensor_rank_4_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/15/cassert:46, from /usr/include/boost/function/function_template.hpp:20, from /usr/include/boost/function/function0.hpp:10, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/converter/arg_to_python_base.hpp:7, from /usr/include/boost/python/converter/arg_to_python.hpp:14, from /usr/include/boost/python/call.hpp:15, from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object/class.hpp:9, from /usr/include/boost/python/class.hpp:13, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hierarchy_atoms_bpl.cpp:6: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = iotbx::pdb::hierarchy::atom; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ 130 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 131 | w_t, | ~~~~ 132 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hierarchy_atoms_bpl.cpp:87:36: required from here 87 | class_ wa = wat::wrap("af_shared_atom"); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = iotbx::pdb::hierarchy::atom_with_labels; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ 130 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 131 | w_t, | ~~~~ 132 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hierarchy_atoms_bpl.cpp:91:44: required from here 91 | class_ wawl = wawl_t::wrap("af_shared_atom_with_labels"); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hierarchy_ext.cpp:11: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hierarchy_atoms.h:167:8: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 167 | std::auto_ptr | ^~~~~~~~ In file included from /usr/include/c++/15/memory:80, from /usr/include/boost/config/no_tr1/memory.hpp:21, from /usr/include/boost/get_pointer.hpp:14, from /usr/include/boost/python/object/pointer_holder.hpp:11, from /usr/include/boost/python/to_python_indirect.hpp:10, from /usr/include/boost/python/converter/arg_to_python.hpp:10, from /usr/include/boost/python/call.hpp:15, from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object/class.hpp:9, from /usr/include/boost/python/class.hpp:13, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hierarchy_ext.cpp:4: /usr/include/c++/15/bits/unique_ptr.h:58:28: note: declared here 58 | template class auto_ptr; | ^~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hierarchy_atoms.h:173:8: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 173 | std::auto_ptr | ^~~~~~~~ /usr/include/c++/15/bits/unique_ptr.h:58:28: note: declared here 58 | template class auto_ptr; | ^~~~~~~~ g++ -o iotbx/pdb/hierarchy_write.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hierarchy_write.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hierarchy_write.cpp:1: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hierarchy_atoms.h:167:8: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 167 | std::auto_ptr | ^~~~~~~~ In file included from /usr/include/c++/15/memory:80, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/detail/misc.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny_plain.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:31, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/namespace.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hierarchy.h:8, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hierarchy_atoms.h:4: /usr/include/c++/15/bits/unique_ptr.h:58:28: note: declared here 58 | template class auto_ptr; | ^~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hierarchy_atoms.h:173:8: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 173 | std::auto_ptr | ^~~~~~~~ /usr/include/c++/15/bits/unique_ptr.h:58:28: note: declared here 58 | template class auto_ptr; | ^~~~~~~~ g++ -o iotbx/pdb/hybrid_36_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hybrid_36_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ gcc -o iotbx/pdb/hybrid_36_c.o -c -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hybrid_36_c.c g++ -o iotbx/pdb/hybrid_36_cpp.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/hybrid_36_cpp.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/pdb/hybrid_36_fem.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable iotbx/pdb/hybrid_36_fem.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/io.hpp:8, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/close_chain.hpp:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/common.hpp:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/read.hpp:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/major_types.hpp:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem.hpp:10, from iotbx/pdb/hybrid_36_fem.cpp:1: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/utils/simple_streams.hpp: In member function ‘virtual void fem::utils::simple_ostream_to_char_ptr_and_size::put(char)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/utils/simple_streams.hpp:63:13: warning: comparison of integer expressions of different signedness: ‘fem::ssize_t’ {aka ‘long int’} and ‘fem::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 63 | if (i < sz) s[i++] = c; | ~~^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/common.hpp: In member function ‘void fem::common::getarg(int, fem::str_ref) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/common.hpp:40:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 40 | if (pos < 0 || pos >= command_line_args.buffer.size()) { | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/utils/string_to_double_fmt.hpp:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/read.hpp:9: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/utils/string_to_double.hpp: In member function ‘void fem::utils::string_to_double::convert(fem::utils::simple_istream&, unsigned int, int)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/utils/string_to_double.hpp:115:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const unsigned int’ [-Wsign-compare] 115 | if (dexp <= ad_hoc_limits::max_digit_count) { | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/read.hpp: In member function ‘double fem::read_loop::read_fmt_double()’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/read.hpp:653:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 653 | if (iw+1 != ed.size()) { | ~~~~~^~~~~~~~~~~~ g++ -o iotbx/pdb/input.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/input.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/variant.hpp:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/major_types.hpp:7: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/utils/equivalence.hpp: In member function ‘void fem::utils::equivalence::array_alignment::infer_diffs0_from_diff_matrix()’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/utils/equivalence.hpp:93:28: warning: comparison of integer expressions of different signedness: ‘const fem::ssize_t’ {aka ‘const long int’} and ‘fem::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 93 | if (c0e[0] == i0) { | ~~~~~~~^~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/major_types.hpp:8: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/write.hpp: In destructor ‘fem::write_loop::~write_loop()’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/write.hpp:704:24: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 704 | while (pos < internal_file_len) { | ~~~~^~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/misc/file_utils.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/input.cpp:3: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/misc/split_lines.h: In function ‘scitbx::af::shared > scitbx::misc::split_lines(const char*, std::size_t, bool, bool)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/misc/split_lines.h:24:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 24 | while (i < size) { | ~~^~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/misc/split_lines.h:25:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 25 | while (i < size && data[i] != '\n' && data[i] != '\r') i++; | ~~^~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/misc/split_lines.h:27:15: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 27 | if (i < size) { | ~~^~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/misc/split_lines.h:28:38: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 28 | if (data[i] == '\r' && i+1 < size && data[i+1] == '\n') { | ~~~~^~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/misc/split_lines.h:46:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 46 | if (j < size) { | ~~^~~~~~ g++ -o iotbx/pdb/hybrid_36_fem -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread iotbx/pdb/hybrid_36_fem.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread g++ -o iotbx/pdb/input_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/input_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/pdb/input_write.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/input_write.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/pdb/overall_counts.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/overall_counts.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/pdb/rna_dna_atom_names_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/rna_dna_atom_names_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/pdb/utils.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/utils.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/pdb/write_utils.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/write_utils.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/write_utils.cpp: In destructor ‘iotbx::pdb::write_utils::fstream_open_close::~fstream_open_close()’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/write_utils.cpp:42:7: warning: ‘throw’ will always call ‘terminate’ [-Wterminate] 42 | throw std::runtime_error( | ^~~~~~~~~~~~~~~~~~~~~~~~~ 43 | "Failure writing to file: \"" + file_name + "\""); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/write_utils.cpp:42:7: note: in C++11 destructors default to ‘noexcept’ g++ -o iotbx/pdb/xray_structure_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/xray_structure_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/shelx/shelx_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/shelx/shelx_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/wildcard_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/wildcard_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/xplor/boost_python/xplor_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/xplor/boost_python/xplor_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scatterer.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/xray_structure.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/pdb/xray_structure_bpl.cpp:7: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here 203 | new tensor_rank_3_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here 214 | new tensor_rank_4_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ g++ -o lib/libann_adaptor.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libann_adaptor.so.0 annlib_adaptbx/ann/ann_adaptor.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread -lann-cctbx Create symlinks for: 'lib/libann_adaptor.so.0.0.1' 'lib/libann_adaptor.so.0'->'lib/libann_adaptor.so.0.0.1' 'lib/libann_adaptor.so'->'lib/libann_adaptor.so.0.0.1' g++ -o lib/annlib_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=annlib_ext.so.0 annlib_adaptbx/ann/boost_python/annlib_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lann-cctbx -lann_adaptor -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/annlib_ext.so.0.0.1' 'lib/annlib_ext.so.0'->'lib/annlib_ext.so.0.0.1' 'lib/annlib_ext.so'->'lib/annlib_ext.so.0.0.1' g++ -o lib/boost_adaptbx_boost_thread_test_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_adaptbx_boost_thread_test_ext.so.0 boost_adaptbx/tests/boost_thread_test.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/boost_adaptbx_boost_thread_test_ext.so.0.0.1' 'lib/boost_adaptbx_boost_thread_test_ext.so.0'->'lib/boost_adaptbx_boost_thread_test_ext.so.0.0.1' 'lib/boost_adaptbx_boost_thread_test_ext.so'->'lib/boost_adaptbx_boost_thread_test_ext.so.0.0.1' g++ -o lib/boost_adaptbx_graph_breadth_first_search_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_adaptbx_graph_breadth_first_search_ext.so.0 boost_adaptbx/graph/breadth_first_search_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/boost_adaptbx_graph_breadth_first_search_ext.so.0.0.1' 'lib/boost_adaptbx_graph_breadth_first_search_ext.so.0'->'lib/boost_adaptbx_graph_breadth_first_search_ext.so.0.0.1' 'lib/boost_adaptbx_graph_breadth_first_search_ext.so'->'lib/boost_adaptbx_graph_breadth_first_search_ext.so.0.0.1' g++ -o lib/boost_adaptbx_graph_clustering_algorithm_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_adaptbx_graph_clustering_algorithm_ext.so.0 boost_adaptbx/graph/clustering_algorithm_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/boost_adaptbx_graph_clustering_algorithm_ext.so.0.0.1' 'lib/boost_adaptbx_graph_clustering_algorithm_ext.so.0'->'lib/boost_adaptbx_graph_clustering_algorithm_ext.so.0.0.1' 'lib/boost_adaptbx_graph_clustering_algorithm_ext.so'->'lib/boost_adaptbx_graph_clustering_algorithm_ext.so.0.0.1' g++ -o lib/boost_adaptbx_graph_connected_component_algorithm_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_adaptbx_graph_connected_component_algorithm_ext.so.0 boost_adaptbx/graph/connected_component_algorithm_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/boost_adaptbx_graph_connected_component_algorithm_ext.so.0.0.1' 'lib/boost_adaptbx_graph_connected_component_algorithm_ext.so.0'->'lib/boost_adaptbx_graph_connected_component_algorithm_ext.so.0.0.1' 'lib/boost_adaptbx_graph_connected_component_algorithm_ext.so'->'lib/boost_adaptbx_graph_connected_component_algorithm_ext.so.0.0.1' g++ -o lib/boost_adaptbx_graph_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_adaptbx_graph_ext.so.0 boost_adaptbx/graph/graph_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/boost_adaptbx_graph_ext.so.0.0.1' 'lib/boost_adaptbx_graph_ext.so.0'->'lib/boost_adaptbx_graph_ext.so.0.0.1' 'lib/boost_adaptbx_graph_ext.so'->'lib/boost_adaptbx_graph_ext.so.0.0.1' g++ -o lib/boost_adaptbx_graph_graph_structure_comparison_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_adaptbx_graph_graph_structure_comparison_ext.so.0 boost_adaptbx/graph/graph_structure_comparison_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread -lboost_python313 -lm g++ -o lib/boost_adaptbx_graph_maximum_clique_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_adaptbx_graph_maximum_clique_ext.so.0 boost_adaptbx/graph/maximum_clique_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/boost_adaptbx_graph_graph_structure_comparison_ext.so.0.0.1' 'lib/boost_adaptbx_graph_graph_structure_comparison_ext.so.0'->'lib/boost_adaptbx_graph_graph_structure_comparison_ext.so.0.0.1' 'lib/boost_adaptbx_graph_graph_structure_comparison_ext.so'->'lib/boost_adaptbx_graph_graph_structure_comparison_ext.so.0.0.1' g++ -o lib/boost_adaptbx_graph_metric_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_adaptbx_graph_metric_ext.so.0 boost_adaptbx/graph/metric_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/boost_adaptbx_graph_metric_ext.so.0.0.1' 'lib/boost_adaptbx_graph_metric_ext.so.0'->'lib/boost_adaptbx_graph_metric_ext.so.0.0.1' 'lib/boost_adaptbx_graph_metric_ext.so'->'lib/boost_adaptbx_graph_metric_ext.so.0.0.1' g++ -o lib/boost_adaptbx_graph_min_cut_max_flow_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_adaptbx_graph_min_cut_max_flow_ext.so.0 boost_adaptbx/graph/min_cut_max_flow_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread -lboost_python313 -lm g++ -o lib/boost_adaptbx_graph_utility_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_adaptbx_graph_utility_ext.so.0 boost_adaptbx/graph/utility_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/boost_adaptbx_graph_utility_ext.so.0.0.1' 'lib/boost_adaptbx_graph_utility_ext.so.0'->'lib/boost_adaptbx_graph_utility_ext.so.0.0.1' 'lib/boost_adaptbx_graph_utility_ext.so'->'lib/boost_adaptbx_graph_utility_ext.so.0.0.1' g++ -o lib/boost_adaptbx_python_streambuf_test_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_adaptbx_python_streambuf_test_ext.so.0 boost_adaptbx/tests/python_streambuf_test_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread -lboost_python313 -lm -lboost_timer Create symlinks for: 'lib/boost_adaptbx_graph_maximum_clique_ext.so.0.0.1' 'lib/boost_adaptbx_graph_maximum_clique_ext.so.0'->'lib/boost_adaptbx_graph_maximum_clique_ext.so.0.0.1' 'lib/boost_adaptbx_graph_maximum_clique_ext.so'->'lib/boost_adaptbx_graph_maximum_clique_ext.so.0.0.1' g++ -o lib/boost_optional_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_optional_ext.so.0 boost_adaptbx/optional_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread -lboost_python313 -lm -lboost_timer Create symlinks for: 'lib/boost_adaptbx_python_streambuf_test_ext.so.0.0.1' 'lib/boost_adaptbx_python_streambuf_test_ext.so.0'->'lib/boost_adaptbx_python_streambuf_test_ext.so.0.0.1' 'lib/boost_adaptbx_python_streambuf_test_ext.so'->'lib/boost_adaptbx_python_streambuf_test_ext.so.0.0.1' g++ -o lib/boost_python_hybrid_times_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_python_hybrid_times_ext.so.0 boost_adaptbx/hybrid_times_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/boost_adaptbx_graph_min_cut_max_flow_ext.so.0.0.1' 'lib/boost_adaptbx_graph_min_cut_max_flow_ext.so.0'->'lib/boost_adaptbx_graph_min_cut_max_flow_ext.so.0.0.1' 'lib/boost_adaptbx_graph_min_cut_max_flow_ext.so'->'lib/boost_adaptbx_graph_min_cut_max_flow_ext.so.0.0.1' g++ -o lib/boost_python_meta_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_python_meta_ext.so.0 boost_adaptbx/meta_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread -lboost_python313 -lm -lboost_timer Create symlinks for: 'lib/boost_optional_ext.so.0.0.1' 'lib/boost_optional_ext.so.0'->'lib/boost_optional_ext.so.0.0.1' 'lib/boost_optional_ext.so'->'lib/boost_optional_ext.so.0.0.1' g++ -o lib/boost_rational_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_rational_ext.so.0 boost_adaptbx/rational_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/boost_python_hybrid_times_ext.so.0.0.1' 'lib/boost_python_hybrid_times_ext.so.0'->'lib/boost_python_hybrid_times_ext.so.0.0.1' 'lib/boost_python_hybrid_times_ext.so'->'lib/boost_python_hybrid_times_ext.so.0.0.1' g++ -o lib/boost_tuple_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_tuple_ext.so.0 boost_adaptbx/tuple_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread -lboost_python313 -lm -lboost_timer Create symlinks for: 'lib/boost_python_meta_ext.so.0.0.1' 'lib/boost_python_meta_ext.so.0'->'lib/boost_python_meta_ext.so.0.0.1' 'lib/boost_python_meta_ext.so'->'lib/boost_python_meta_ext.so.0.0.1' g++ -o lib/cbflib_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cbflib_ext.so.0 cbflib_adaptbx/detectors/boost_python/cbflib_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lcbf-private -lcbf -lboost_thread -lboost_python313 -lm -lhdf5 Create symlinks for: 'lib/boost_tuple_ext.so.0.0.1' 'lib/boost_tuple_ext.so.0'->'lib/boost_tuple_ext.so.0.0.1' 'lib/boost_tuple_ext.so'->'lib/boost_tuple_ext.so.0.0.1' Create symlinks for: 'lib/cbflib_ext.so.0.0.1' 'lib/cbflib_ext.so.0'->'lib/cbflib_ext.so.0.0.1' 'lib/cbflib_ext.so'->'lib/cbflib_ext.so.0.0.1' g++ -o lib/libccp4io.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libccp4io.so.0 ccp4io_adaptbx/fortran_call_stubs.o ccp4io_adaptbx/printf_wrappers.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread -lm -lccp4c Create symlinks for: 'lib/boost_rational_ext.so.0.0.1' 'lib/boost_rational_ext.so.0'->'lib/boost_rational_ext.so.0.0.1' 'lib/boost_rational_ext.so'->'lib/boost_rational_ext.so.0.0.1' g++ -o scitbx/boost_python/utils.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/utils.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/boost_python/slice.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/slice.cpp Create symlinks for: 'lib/libccp4io.so.0.0.1' 'lib/libccp4io.so.0'->'lib/libccp4io.so.0.0.1' 'lib/libccp4io.so'->'lib/libccp4io.so.0.0.1' cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/ccp4io_adaptbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=ccp4io_adaptbx_ext.so.0 ccp4io_adaptbx/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lccp4io -lccp4c -lssm -lmmdb2 -lboost_thread -lboost_python313 -lm g++ -o scitbx/array_family/boost_python/utils.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/utils.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ Create symlinks for: 'lib/ccp4io_adaptbx_ext.so.0.0.1' 'lib/ccp4io_adaptbx_ext.so.0'->'lib/ccp4io_adaptbx_ext.so.0.0.1' 'lib/ccp4io_adaptbx_ext.so'->'lib/ccp4io_adaptbx_ext.so.0.0.1' g++ -o lib/cma_es_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cma_es_ext.so.0 cma_es/cma_es_ext.o cma_es/cma/cmaes.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/cma_es_ext.so.0.0.1' 'lib/cma_es_ext.so.0'->'lib/cma_es_ext.so.0.0.1' 'lib/cma_es_ext.so'->'lib/cma_es_ext.so.0.0.1' g++ -o lib/dxtbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=dxtbx_ext.so.0 dxtbx/src/dxtbx/boost_python/ext.o dxtbx/src/dxtbx/boost_python/compression.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/base/lib -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lm -ltiff -lboost_python313 -lcbf Create symlinks for: 'lib/dxtbx_ext.so.0.0.1' 'lib/dxtbx_ext.so.0'->'lib/dxtbx_ext.so.0.0.1' 'lib/dxtbx_ext.so'->'lib/dxtbx_ext.so.0.0.1' g++ -o lib/dxtbx_format_image_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=dxtbx_format_image_ext.so.0 dxtbx/src/dxtbx/format/boost_python/image_ext.o dxtbx/src/dxtbx/format/boost_python/cbf_read_buffer.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/base/lib -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lm -ltiff -lboost_python313 -lcbf -lhdf5 Create symlinks for: 'lib/dxtbx_format_image_ext.so.0.0.1' 'lib/dxtbx_format_image_ext.so.0'->'lib/dxtbx_format_image_ext.so.0.0.1' 'lib/dxtbx_format_image_ext.so'->'lib/dxtbx_format_image_ext.so.0.0.1' g++ -o lib/dxtbx_format_nexus_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=dxtbx_format_nexus_ext.so.0 dxtbx/src/dxtbx/format/boost_python/nexus_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/base/lib -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lm -ltiff -lboost_python313 -lcbf -lhdf5 Create symlinks for: 'lib/dxtbx_format_nexus_ext.so.0.0.1' 'lib/dxtbx_format_nexus_ext.so.0'->'lib/dxtbx_format_nexus_ext.so.0.0.1' 'lib/dxtbx_format_nexus_ext.so'->'lib/dxtbx_format_nexus_ext.so.0.0.1' g++ -o lib/fable_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=fable_ext.so.0 fable/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread -lboost_python313 -lm g++ -o lib/iotbx_ccp4_map_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_ccp4_map_ext.so.0 iotbx/ccp4_map/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lccp4c -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/fable_ext.so.0.0.1' 'lib/fable_ext.so.0'->'lib/fable_ext.so.0.0.1' 'lib/fable_ext.so'->'lib/fable_ext.so.0.0.1' g++ -o ucif/cifParser.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/ucif/cifParser.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ Create symlinks for: 'lib/iotbx_ccp4_map_ext.so.0.0.1' 'lib/iotbx_ccp4_map_ext.so.0'->'lib/iotbx_ccp4_map_ext.so.0.0.1' 'lib/iotbx_ccp4_map_ext.so'->'lib/iotbx_ccp4_map_ext.so.0.0.1' g++ -o ucif/cifLexer.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/ucif/cifLexer.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/iotbx_detectors_bruker_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_detectors_bruker_ext.so.0 iotbx/detectors/bruker_ext.o iotbx/detectors/bruker.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/iotbx_detectors_bruker_ext.so.0.0.1' 'lib/iotbx_detectors_bruker_ext.so.0'->'lib/iotbx_detectors_bruker_ext.so.0.0.1' 'lib/iotbx_detectors_bruker_ext.so'->'lib/iotbx_detectors_bruker_ext.so.0.0.1' g++ -o lib/iotbx_detectors_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_detectors_ext.so.0 iotbx/detectors/detectors_ext.o iotbx/detectors/image_divider.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread -lboost_python313 -lm g++ -o lib/iotbx_dsn6_map_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_dsn6_map_ext.so.0 iotbx/dsn6/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/iotbx_detectors_ext.so.0.0.1' 'lib/iotbx_detectors_ext.so.0'->'lib/iotbx_detectors_ext.so.0.0.1' 'lib/iotbx_detectors_ext.so'->'lib/iotbx_detectors_ext.so.0.0.1' Create symlinks for: 'lib/iotbx_dsn6_map_ext.so.0.0.1' 'lib/iotbx_dsn6_map_ext.so.0'->'lib/iotbx_dsn6_map_ext.so.0.0.1' 'lib/iotbx_dsn6_map_ext.so'->'lib/iotbx_dsn6_map_ext.so.0.0.1' g++ -o lib/iotbx_dtrek_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_dtrek_ext.so.0 iotbx/misc/boost_python/dtrek_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lboost_thread -lboost_python313 -lm g++ -o lib/libiotbx_mtz.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libiotbx_mtz.so.0 iotbx/mtz/object.o iotbx/mtz/crystal.o iotbx/mtz/dataset.o iotbx/mtz/column.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lccp4io -lccp4c -lm -lboost_thread Create symlinks for: 'lib/iotbx_dtrek_ext.so.0.0.1' 'lib/iotbx_dtrek_ext.so.0'->'lib/iotbx_dtrek_ext.so.0.0.1' 'lib/iotbx_dtrek_ext.so'->'lib/iotbx_dtrek_ext.so.0.0.1' g++ -o lib/libiotbx_pdb.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libiotbx_pdb.so.0 iotbx/pdb/hybrid_36_c.o iotbx/pdb/hybrid_36_cpp.o iotbx/pdb/utils.o iotbx/pdb/write_utils.o iotbx/pdb/hierarchy.o iotbx/pdb/hierarchy_select.o iotbx/pdb/hierarchy_atoms.o iotbx/pdb/construct_hierarchy.o iotbx/pdb/overall_counts.o iotbx/pdb/hierarchy_write.o iotbx/pdb/atom_selection.o iotbx/pdb/input.o iotbx/pdb/input_write.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread g++ -o lib/iotbx_scalepack_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_scalepack_ext.so.0 iotbx/misc/boost_python/scalepack_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/libiotbx_mtz.so.0.0.1' 'lib/libiotbx_mtz.so.0'->'lib/libiotbx_mtz.so.0.0.1' 'lib/libiotbx_mtz.so'->'lib/libiotbx_mtz.so.0.0.1' g++ -o lib/iotbx_shelx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_shelx_ext.so.0 iotbx/shelx/shelx_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread -lboost_python313 -lm g++ -o lib/libscitbx_boost_python.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -shared -rdynamic -std=c++14 -Wl,-soname=libscitbx_boost_python.so.0 scitbx/boost_python/utils.o scitbx/boost_python/slice.o scitbx/array_family/boost_python/utils.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread -lboost_python313 Create symlinks for: 'lib/libiotbx_pdb.so.0.0.1' 'lib/libiotbx_pdb.so.0'->'lib/libiotbx_pdb.so.0.0.1' 'lib/libiotbx_pdb.so'->'lib/libiotbx_pdb.so.0.0.1' Create symlinks for: 'lib/iotbx_scalepack_ext.so.0.0.1' 'lib/iotbx_scalepack_ext.so.0'->'lib/iotbx_scalepack_ext.so.0.0.1' 'lib/iotbx_scalepack_ext.so'->'lib/iotbx_scalepack_ext.so.0.0.1' g++ -o lib/iotbx_wildcard_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_wildcard_ext.so.0 iotbx/wildcard_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/iotbx_shelx_ext.so.0.0.1' 'lib/iotbx_shelx_ext.so.0'->'lib/iotbx_shelx_ext.so.0.0.1' 'lib/iotbx_shelx_ext.so'->'lib/iotbx_shelx_ext.so.0.0.1' g++ -o lib/iotbx_xplor_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_xplor_ext.so.0 iotbx/xplor/boost_python/xplor_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -liotbx_xplor -lcctbx -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/libscitbx_boost_python.so.0.0.1' 'lib/libscitbx_boost_python.so.0'->'lib/libscitbx_boost_python.so.0.0.1' 'lib/libscitbx_boost_python.so'->'lib/libscitbx_boost_python.so.0.0.1' Create symlinks for: 'lib/iotbx_wildcard_ext.so.0.0.1' 'lib/iotbx_wildcard_ext.so.0'->'lib/iotbx_wildcard_ext.so.0.0.1' 'lib/iotbx_wildcard_ext.so'->'lib/iotbx_wildcard_ext.so.0.0.1' g++ -o spotfinder/dxtbx_toolbox/libdistl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -Ispotfinder/src -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/src -Ispotfinder/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/dxtbx_toolbox/libdistl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/gltbx_glu_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=gltbx_glu_ext.so.0 gltbx/glu_ext.o gltbx/glu_defines_00_bpl.o gltbx/glu_defines_01_bpl.o gltbx/glu_functions_00_bpl.o gltbx/glu_functions_01_bpl.o gltbx/glu_functions_02_bpl.o gltbx/glu_functions_03_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_python313 -lGLU -lGL -lm g++ -o lib/gltbx_viewer_utils_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=gltbx_viewer_utils_ext.so.0 gltbx/viewer_utils_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_python313 -lGLU -lGL -lm g++ -o lib/dxtbx_flumpy.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=dxtbx_flumpy.so.0 dxtbx/src/dxtbx/boost_python/flumpy.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/base/lib -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lm -ltiff -lboost_python313 -lcbf -lboost_thread -lm -lcctbx -lscitbx_boost_python -ltiff -lboost_python313 -lcbf -lhdf5 Create symlinks for: 'lib/iotbx_xplor_ext.so.0.0.1' 'lib/iotbx_xplor_ext.so.0'->'lib/iotbx_xplor_ext.so.0.0.1' 'lib/iotbx_xplor_ext.so'->'lib/iotbx_xplor_ext.so.0.0.1' Create symlinks for: 'lib/gltbx_viewer_utils_ext.so.0.0.1' 'lib/gltbx_viewer_utils_ext.so.0'->'lib/gltbx_viewer_utils_ext.so.0.0.1' 'lib/gltbx_viewer_utils_ext.so'->'lib/gltbx_viewer_utils_ext.so.0.0.1' g++ -o lib/gltbx_gl_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=gltbx_gl_ext.so.0 gltbx/gl_ext.o gltbx/gl_defines_00_bpl.o gltbx/gl_defines_01_bpl.o gltbx/gl_defines_02_bpl.o gltbx/gl_defines_03_bpl.o gltbx/gl_defines_04_bpl.o gltbx/gl_defines_05_bpl.o gltbx/gl_defines_06_bpl.o gltbx/gl_defines_07_bpl.o gltbx/gl_functions_00_bpl.o gltbx/gl_functions_01_bpl.o gltbx/gl_functions_02_bpl.o gltbx/gl_functions_03_bpl.o gltbx/gl_functions_04_bpl.o gltbx/gl_functions_05_bpl.o gltbx/gl_functions_06_bpl.o gltbx/gl_functions_07_bpl.o gltbx/gl_functions_08_bpl.o gltbx/gl_functions_09_bpl.o gltbx/gl_functions_10_bpl.o gltbx/gl_functions_11_bpl.o gltbx/gl_functions_12_bpl.o gltbx/gl_functions_13_bpl.o gltbx/gl_functions_14_bpl.o gltbx/gl_functions_15_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_python313 -lGLU -lGL -lm g++ -o lib/cctbx_uctbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_uctbx_ext.so.0 cctbx/uctbx/boost_python/uctbx_ext.o cctbx/uctbx/boost_python/fast_minimum_reduction.o cctbx/uctbx/boost_python/niggli_reduction.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/gltbx_glu_ext.so.0.0.1' 'lib/gltbx_glu_ext.so.0'->'lib/gltbx_glu_ext.so.0.0.1' 'lib/gltbx_glu_ext.so'->'lib/gltbx_glu_ext.so.0.0.1' g++ -o lib/cctbx_translation_search_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_translation_search_ext.so.0 cctbx/translation_search/boost_python/translation_search_ext.o cctbx/translation_search/boost_python/fast_nv1995.o cctbx/translation_search/boost_python/fast_terms.o cctbx/translation_search/boost_python/symmetry_flags.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lomptbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm g++ -o lib/iotbx_cif_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_cif_ext.so.0 iotbx/cif/boost_python/cif_ext.o ucif/cifParser.o ucif/cifLexer.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread -lboost_python313 -lm -lantlr3c Create symlinks for: 'lib/cctbx_uctbx_ext.so.0.0.1' 'lib/cctbx_uctbx_ext.so.0'->'lib/cctbx_uctbx_ext.so.0.0.1' 'lib/cctbx_uctbx_ext.so'->'lib/cctbx_uctbx_ext.so.0.0.1' Create symlinks for: 'lib/dxtbx_flumpy.so.0.0.1' 'lib/dxtbx_flumpy.so.0'->'lib/dxtbx_flumpy.so.0.0.1' 'lib/dxtbx_flumpy.so'->'lib/dxtbx_flumpy.so.0.0.1' g++ -o lib/cctbx_masks_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_masks_ext.so.0 cctbx/masks/boost_python/masks_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lomptbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm g++ -o lib/determine_unit_cell_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=determine_unit_cell_ext.so.0 cctbx/uctbx/determine_unit_cell/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lomptbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/cctbx_translation_search_ext.so.0.0.1' 'lib/cctbx_translation_search_ext.so.0'->'lib/cctbx_translation_search_ext.so.0.0.1' 'lib/cctbx_translation_search_ext.so'->'lib/cctbx_translation_search_ext.so.0.0.1' g++ -o lib/cctbx_eltbx_henke_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_henke_ext.so.0 cctbx/eltbx/boost_python/henke_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/gltbx_gl_ext.so.0.0.1' 'lib/gltbx_gl_ext.so.0'->'lib/gltbx_gl_ext.so.0.0.1' 'lib/gltbx_gl_ext.so'->'lib/gltbx_gl_ext.so.0.0.1' Create symlinks for: 'lib/iotbx_cif_ext.so.0.0.1' 'lib/iotbx_cif_ext.so.0'->'lib/iotbx_cif_ext.so.0.0.1' 'lib/iotbx_cif_ext.so'->'lib/iotbx_cif_ext.so.0.0.1' g++ -o lib/cctbx_symmetry_search_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_symmetry_search_ext.so.0 cctbx/symmetry_search/boost_python/symmetry_search_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lomptbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm g++ -o lib/cctbx_eltbx_sasaki_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_sasaki_ext.so.0 cctbx/eltbx/boost_python/sasaki_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/cctbx_masks_ext.so.0.0.1' 'lib/cctbx_masks_ext.so.0'->'lib/cctbx_masks_ext.so.0.0.1' 'lib/cctbx_masks_ext.so'->'lib/cctbx_masks_ext.so.0.0.1' g++ -o lib/dxtbx_masking_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=dxtbx_masking_ext.so.0 dxtbx/src/dxtbx/masking/boost_python/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/base/lib -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lboost_thread -lm -lcctbx -lscitbx_boost_python -ltiff -lboost_python313 -lcbf -lhdf5 Create symlinks for: 'lib/determine_unit_cell_ext.so.0.0.1' 'lib/determine_unit_cell_ext.so.0'->'lib/determine_unit_cell_ext.so.0.0.1' 'lib/determine_unit_cell_ext.so'->'lib/determine_unit_cell_ext.so.0.0.1' g++ -o lib/cctbx_emma_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_emma_ext.so.0 cctbx/boost_python/emma_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/cctbx_eltbx_henke_ext.so.0.0.1' 'lib/cctbx_eltbx_henke_ext.so.0'->'lib/cctbx_eltbx_henke_ext.so.0.0.1' 'lib/cctbx_eltbx_henke_ext.so'->'lib/cctbx_eltbx_henke_ext.so.0.0.1' g++ -o lib/cctbx_eltbx_wavelengths_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_wavelengths_ext.so.0 cctbx/eltbx/boost_python/wavelengths_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/cctbx_symmetry_search_ext.so.0.0.1' 'lib/cctbx_symmetry_search_ext.so.0'->'lib/cctbx_symmetry_search_ext.so.0.0.1' 'lib/cctbx_symmetry_search_ext.so'->'lib/cctbx_symmetry_search_ext.so.0.0.1' g++ -o lib/cctbx_french_wilson_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_french_wilson_ext.so.0 cctbx/boost_python/french_wilson_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/cctbx_emma_ext.so.0.0.1' 'lib/cctbx_emma_ext.so.0'->'lib/cctbx_emma_ext.so.0.0.1' 'lib/cctbx_emma_ext.so'->'lib/cctbx_emma_ext.so.0.0.1' Create symlinks for: 'lib/cctbx_eltbx_sasaki_ext.so.0.0.1' 'lib/cctbx_eltbx_sasaki_ext.so.0'->'lib/cctbx_eltbx_sasaki_ext.so.0.0.1' 'lib/cctbx_eltbx_sasaki_ext.so'->'lib/cctbx_eltbx_sasaki_ext.so.0.0.1' g++ -o lib/cctbx_eltbx_covalent_radii_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_covalent_radii_ext.so.0 cctbx/eltbx/boost_python/covalent_radii_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm g++ -o lib/iotbx_pdb_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_pdb_ext.so.0 iotbx/pdb/ext.o iotbx/pdb/hybrid_36_bpl.o iotbx/pdb/common_residue_names_bpl.o iotbx/pdb/rna_dna_atom_names_bpl.o iotbx/pdb/input_bpl.o iotbx/pdb/xray_structure_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -liotbx_pdb -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/cctbx_french_wilson_ext.so.0.0.1' 'lib/cctbx_french_wilson_ext.so.0'->'lib/cctbx_french_wilson_ext.so.0.0.1' 'lib/cctbx_french_wilson_ext.so'->'lib/cctbx_french_wilson_ext.so.0.0.1' g++ -o lib/cctbx_anharmonic_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_anharmonic_ext.so.0 cctbx/adptbx/boost_python/anharmonic_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/cctbx_eltbx_covalent_radii_ext.so.0.0.1' 'lib/cctbx_eltbx_covalent_radii_ext.so.0'->'lib/cctbx_eltbx_covalent_radii_ext.so.0.0.1' 'lib/cctbx_eltbx_covalent_radii_ext.so'->'lib/cctbx_eltbx_covalent_radii_ext.so.0.0.1' g++ -o lib/cctbx_sgtbx_asu_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_sgtbx_asu_ext.so.0 cctbx/sgtbx/direct_space_asu/proto/asu_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx_sgtbx_asu -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/cctbx_eltbx_wavelengths_ext.so.0.0.1' 'lib/cctbx_eltbx_wavelengths_ext.so.0'->'lib/cctbx_eltbx_wavelengths_ext.so.0.0.1' 'lib/cctbx_eltbx_wavelengths_ext.so'->'lib/cctbx_eltbx_wavelengths_ext.so.0.0.1' g++ -o lib/cctbx_eltbx_fp_fdp_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_fp_fdp_ext.so.0 cctbx/eltbx/boost_python/fp_fdp_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/cctbx_anharmonic_ext.so.0.0.1' 'lib/cctbx_anharmonic_ext.so.0'->'lib/cctbx_anharmonic_ext.so.0.0.1' 'lib/cctbx_anharmonic_ext.so'->'lib/cctbx_anharmonic_ext.so.0.0.1' g++ -o lib/cctbx_sgtbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_sgtbx_ext.so.0 cctbx/sgtbx/boost_python/sgtbx_ext.o cctbx/sgtbx/boost_python/brick.o cctbx/sgtbx/boost_python/change_of_basis.o cctbx/sgtbx/boost_python/find_affine.o cctbx/sgtbx/boost_python/lattice_symmetry.o cctbx/sgtbx/boost_python/phase_info.o cctbx/sgtbx/boost_python/reciprocal_space_asu.o cctbx/sgtbx/boost_python/rot_mx.o cctbx/sgtbx/boost_python/rt_mx.o cctbx/sgtbx/boost_python/search_symmetry.o cctbx/sgtbx/boost_python/seminvariant.o cctbx/sgtbx/boost_python/site_symmetry.o cctbx/sgtbx/boost_python/space_group.o cctbx/sgtbx/boost_python/space_group_type.o cctbx/sgtbx/boost_python/sym_equiv_sites.o cctbx/sgtbx/boost_python/symbols.o cctbx/sgtbx/boost_python/tensor_rank_2.o cctbx/sgtbx/boost_python/tensors.o cctbx/sgtbx/boost_python/tr_vec.o cctbx/sgtbx/boost_python/wyckoff.o cctbx/sgtbx/boost_python/select_generators.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/cctbx_eltbx_fp_fdp_ext.so.0.0.1' 'lib/cctbx_eltbx_fp_fdp_ext.so.0'->'lib/cctbx_eltbx_fp_fdp_ext.so.0.0.1' 'lib/cctbx_eltbx_fp_fdp_ext.so'->'lib/cctbx_eltbx_fp_fdp_ext.so.0.0.1' g++ -o lib/cctbx_orientation_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_orientation_ext.so.0 cctbx/boost_python/orientation_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/dxtbx_masking_ext.so.0.0.1' 'lib/dxtbx_masking_ext.so.0'->'lib/dxtbx_masking_ext.so.0.0.1' 'lib/dxtbx_masking_ext.so'->'lib/dxtbx_masking_ext.so.0.0.1' g++ -o lib/cctbx_maptbx_bcr_bcr_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_maptbx_bcr_bcr_ext.so.0 cctbx/maptbx/bcr/bcr_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/cctbx_sgtbx_asu_ext.so.0.0.1' 'lib/cctbx_sgtbx_asu_ext.so.0'->'lib/cctbx_sgtbx_asu_ext.so.0.0.1' 'lib/cctbx_sgtbx_asu_ext.so'->'lib/cctbx_sgtbx_asu_ext.so.0.0.1' Create symlinks for: 'lib/cctbx_orientation_ext.so.0.0.1' 'lib/cctbx_orientation_ext.so.0'->'lib/cctbx_orientation_ext.so.0.0.1' 'lib/cctbx_orientation_ext.so'->'lib/cctbx_orientation_ext.so.0.0.1' g++ -o lib/iotbx_mtz_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_mtz_ext.so.0 iotbx/mtz/ext.o iotbx/mtz/object_bpl.o iotbx/mtz/crystal_bpl.o iotbx/mtz/dataset_bpl.o iotbx/mtz/column_bpl.o iotbx/mtz/batch_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -liotbx_mtz -lcctbx -lccp4io -lccp4c -lscitbx_boost_python -lboost_thread -lboost_python313 -lm g++ -o lib/cctbx_miller_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_miller_ext.so.0 cctbx/miller/boost_python/miller_ext.o cctbx/miller/boost_python/asu.o cctbx/miller/boost_python/bins.o cctbx/miller/boost_python/change_basis.o cctbx/miller/boost_python/expand_to_p1.o cctbx/miller/boost_python/index_generator.o cctbx/miller/boost_python/index_span.o cctbx/miller/boost_python/match_bijvoet_mates.o cctbx/miller/boost_python/match_indices.o cctbx/miller/boost_python/match_multi_indices.o cctbx/miller/boost_python/merge_equivalents.o cctbx/miller/boost_python/phase_integrator.o cctbx/miller/boost_python/phase_transfer.o cctbx/miller/boost_python/sym_equiv.o cctbx/miller/boost_python/f_calc_map.o cctbx/miller/boost_python/lookup_utils.o cctbx/miller/boost_python/amplitude_normalisation.o cctbx/miller/boost_python/randomize_amplitude_and_phase.o cctbx/miller/boost_python/slices.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/iotbx_pdb_ext.so.0.0.1' 'lib/iotbx_pdb_ext.so.0'->'lib/iotbx_pdb_ext.so.0.0.1' 'lib/iotbx_pdb_ext.so'->'lib/iotbx_pdb_ext.so.0.0.1' g++ -o lib/cctbx_maptbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_maptbx_ext.so.0 cctbx/maptbx/boost_python/maptbx_ext.o cctbx/maptbx/boost_python/grid_indices_around_sites.o cctbx/maptbx/boost_python/grid_tags.o cctbx/maptbx/boost_python/gridding.o cctbx/maptbx/boost_python/misc.o cctbx/maptbx/boost_python/peak_search.o cctbx/maptbx/boost_python/pymol_interface.o cctbx/maptbx/boost_python/statistics.o cctbx/maptbx/boost_python/structure_factors.o cctbx/maptbx/boost_python/coordinate_transformers.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lomptbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/cctbx_maptbx_bcr_bcr_ext.so.0.0.1' 'lib/cctbx_maptbx_bcr_bcr_ext.so.0'->'lib/cctbx_maptbx_bcr_bcr_ext.so.0.0.1' 'lib/cctbx_maptbx_bcr_bcr_ext.so'->'lib/cctbx_maptbx_bcr_bcr_ext.so.0.0.1' g++ -o lib/cctbx_merging_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_merging_ext.so.0 cctbx/merging/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/cctbx_merging_ext.so.0.0.1' 'lib/cctbx_merging_ext.so.0'->'lib/cctbx_merging_ext.so.0.0.1' 'lib/cctbx_merging_ext.so'->'lib/cctbx_merging_ext.so.0.0.1' g++ -o lib/cctbx_math_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_math_ext.so.0 cctbx/math/boost_python/math_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm g++ -o lib/cctbx_asymmetric_map_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_asymmetric_map_ext.so.0 cctbx/maptbx/asymmetric_map_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lasymmetric_map -liotbx_xplor -lcctbx_sgtbx_asu -lcctbx -lomptbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/cctbx_asymmetric_map_ext.so.0.0.1' 'lib/cctbx_asymmetric_map_ext.so.0'->'lib/cctbx_asymmetric_map_ext.so.0.0.1' 'lib/cctbx_asymmetric_map_ext.so'->'lib/cctbx_asymmetric_map_ext.so.0.0.1' g++ -o lib/cctbx_dmtbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_dmtbx_ext.so.0 cctbx/dmtbx/boost_python/dmtbx_ext.o cctbx/dmtbx/boost_python/triplet_phase_relation.o cctbx/dmtbx/boost_python/triplet_generator.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/cctbx_math_ext.so.0.0.1' 'lib/cctbx_math_ext.so.0'->'lib/cctbx_math_ext.so.0.0.1' 'lib/cctbx_math_ext.so'->'lib/cctbx_math_ext.so.0.0.1' g++ -o lib/cctbx_array_family_flex_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_array_family_flex_ext.so.0 cctbx/array_family/boost_python/flex_ext.o cctbx/array_family/boost_python/flex_hendrickson_lattman.o cctbx/array_family/boost_python/flex_miller_index.o cctbx/array_family/boost_python/flex_xray_scatterer.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/cctbx_dmtbx_ext.so.0.0.1' 'lib/cctbx_dmtbx_ext.so.0'->'lib/cctbx_dmtbx_ext.so.0.0.1' 'lib/cctbx_dmtbx_ext.so'->'lib/cctbx_dmtbx_ext.so.0.0.1' g++ -o lib/dxtbx_model_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=dxtbx_model_ext.so.0 dxtbx/src/dxtbx/model/boost_python/beam.o dxtbx/src/dxtbx/model/boost_python/spectrum.o dxtbx/src/dxtbx/model/boost_python/goniometer.o dxtbx/src/dxtbx/model/boost_python/kappa_goniometer.o dxtbx/src/dxtbx/model/boost_python/multi_axis_goniometer.o dxtbx/src/dxtbx/model/boost_python/panel.o dxtbx/src/dxtbx/model/boost_python/detector.o dxtbx/src/dxtbx/model/boost_python/scan.o dxtbx/src/dxtbx/model/boost_python/scan_helpers.o dxtbx/src/dxtbx/model/boost_python/crystal.o dxtbx/src/dxtbx/model/boost_python/parallax_correction.o dxtbx/src/dxtbx/model/boost_python/pixel_to_millimeter.o dxtbx/src/dxtbx/model/boost_python/history.o dxtbx/src/dxtbx/model/boost_python/experiment.o dxtbx/src/dxtbx/model/boost_python/experiment_list.o dxtbx/src/dxtbx/model/boost_python/model_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/base/lib -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lm -ltiff -lboost_python313 -lcbf -lboost_thread -lm -lcctbx -lscitbx_boost_python -ltiff -lboost_python313 -lcbf -lhdf5 Create symlinks for: 'lib/iotbx_mtz_ext.so.0.0.1' 'lib/iotbx_mtz_ext.so.0'->'lib/iotbx_mtz_ext.so.0.0.1' 'lib/iotbx_mtz_ext.so'->'lib/iotbx_mtz_ext.so.0.0.1' g++ -o lib/gltbx_util_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=gltbx_util_ext.so.0 gltbx/util_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_python313 -lGLU -lGL -lm Create symlinks for: 'lib/cctbx_miller_ext.so.0.0.1' 'lib/cctbx_miller_ext.so.0'->'lib/cctbx_miller_ext.so.0.0.1' 'lib/cctbx_miller_ext.so'->'lib/cctbx_miller_ext.so.0.0.1' g++ -o lib/cctbx_eltbx_chemical_elements_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_chemical_elements_ext.so.0 cctbx/eltbx/boost_python/chemical_elements_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/gltbx_util_ext.so.0.0.1' 'lib/gltbx_util_ext.so.0'->'lib/gltbx_util_ext.so.0.0.1' 'lib/gltbx_util_ext.so'->'lib/gltbx_util_ext.so.0.0.1' g++ -o lib/cctbx_adptbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_adptbx_ext.so.0 cctbx/adptbx/boost_python/adptbx_ext.o cctbx/adptbx/boost_python/hirshfeld.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/cctbx_eltbx_chemical_elements_ext.so.0.0.1' 'lib/cctbx_eltbx_chemical_elements_ext.so.0'->'lib/cctbx_eltbx_chemical_elements_ext.so.0.0.1' 'lib/cctbx_eltbx_chemical_elements_ext.so'->'lib/cctbx_eltbx_chemical_elements_ext.so.0.0.1' g++ -o lib/iotbx_pdb_hierarchy_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_pdb_hierarchy_ext.so.0 iotbx/pdb/hierarchy_ext.o iotbx/pdb/hierarchy_atom_bpl.o iotbx/pdb/hierarchy_atoms_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -liotbx_pdb -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/cctbx_maptbx_ext.so.0.0.1' 'lib/cctbx_maptbx_ext.so.0'->'lib/cctbx_maptbx_ext.so.0.0.1' 'lib/cctbx_maptbx_ext.so'->'lib/cctbx_maptbx_ext.so.0.0.1' Create symlinks for: 'lib/cctbx_sgtbx_ext.so.0.0.1' 'lib/cctbx_sgtbx_ext.so.0'->'lib/cctbx_sgtbx_ext.so.0.0.1' 'lib/cctbx_sgtbx_ext.so'->'lib/cctbx_sgtbx_ext.so.0.0.1' Create symlinks for: 'lib/cctbx_array_family_flex_ext.so.0.0.1' 'lib/cctbx_array_family_flex_ext.so.0'->'lib/cctbx_array_family_flex_ext.so.0.0.1' 'lib/cctbx_array_family_flex_ext.so'->'lib/cctbx_array_family_flex_ext.so.0.0.1' g++ -o lib/gltbx_quadrics_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=gltbx_quadrics_ext.so.0 gltbx/quadrics_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_python313 -lGLU -lGL -lm Create symlinks for: 'lib/cctbx_adptbx_ext.so.0.0.1' 'lib/cctbx_adptbx_ext.so.0'->'lib/cctbx_adptbx_ext.so.0.0.1' 'lib/cctbx_adptbx_ext.so'->'lib/cctbx_adptbx_ext.so.0.0.1' Create symlinks for: 'lib/gltbx_quadrics_ext.so.0.0.1' 'lib/gltbx_quadrics_ext.so.0'->'lib/gltbx_quadrics_ext.so.0.0.1' 'lib/gltbx_quadrics_ext.so'->'lib/gltbx_quadrics_ext.so.0.0.1' g++ -o lib/gltbx_fonts_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=gltbx_fonts_ext.so.0 gltbx/fonts_ext.o gltbx/font_ucs_8x13.o gltbx/font_ucs_9x15.o gltbx/font_ucs_10x20.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_python313 -lGLU -lGL -lm g++ -o lib/cctbx_xray_observations_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_xray_observations_ext.so.0 cctbx/xray/observations/boost_python/observations.o cctbx/xray/observations/boost_python/observations_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm g++ -o lib/cctbx_geometry_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_geometry_ext.so.0 cctbx/geometry/boost_python/geometry_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm g++ -o lib/cctbx_crystal_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_crystal_ext.so.0 cctbx/crystal/crystal_ext.o cctbx/crystal/asu_clusters_bpl.o cctbx/crystal/close_packing_bpl.o cctbx/crystal/coordination_sequences_bpl.o cctbx/crystal/direct_space_asu_bpl.o cctbx/crystal/incremental_pairs_bpl.o cctbx/crystal/neighbors_bpl.o cctbx/crystal/pair_tables_bpl.o cctbx/crystal/site_cluster_analysis_bpl.o cctbx/crystal/symmetry_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/gltbx_fonts_ext.so.0.0.1' 'lib/gltbx_fonts_ext.so.0'->'lib/gltbx_fonts_ext.so.0.0.1' 'lib/gltbx_fonts_ext.so'->'lib/gltbx_fonts_ext.so.0.0.1' g++ -o lib/cctbx_adp_restraints_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_adp_restraints_ext.so.0 cctbx/adp_restraints/adp_restraints_bpl.o cctbx/adp_restraints/adp_restraints_ext.o cctbx/adp_restraints/rigid_bond_bpl.o cctbx/adp_restraints/rigu_bpl.o cctbx/adp_restraints/adp_similarity_bpl.o cctbx/adp_restraints/isotropic_adp_bpl.o cctbx/adp_restraints/aniso_restraints_bpl.o cctbx/adp_restraints/fixed_u_eq_adp_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/cctbx_geometry_ext.so.0.0.1' 'lib/cctbx_geometry_ext.so.0'->'lib/cctbx_geometry_ext.so.0.0.1' 'lib/cctbx_geometry_ext.so'->'lib/cctbx_geometry_ext.so.0.0.1' g++ -o lib/cctbx_eltbx_neutron_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_neutron_ext.so.0 cctbx/eltbx/boost_python/neutron_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/cctbx_xray_observations_ext.so.0.0.1' 'lib/cctbx_xray_observations_ext.so.0'->'lib/cctbx_xray_observations_ext.so.0.0.1' 'lib/cctbx_xray_observations_ext.so'->'lib/cctbx_xray_observations_ext.so.0.0.1' g++ -o lib/cctbx_statistics_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_statistics_ext.so.0 cctbx/boost_python/statistics_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/cctbx_statistics_ext.so.0.0.1' 'lib/cctbx_statistics_ext.so.0'->'lib/cctbx_statistics_ext.so.0.0.1' 'lib/cctbx_statistics_ext.so'->'lib/cctbx_statistics_ext.so.0.0.1' g++ -o lib/cctbx_eltbx_tiny_pse_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_tiny_pse_ext.so.0 cctbx/eltbx/boost_python/tiny_pse_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/iotbx_pdb_hierarchy_ext.so.0.0.1' 'lib/iotbx_pdb_hierarchy_ext.so.0'->'lib/iotbx_pdb_hierarchy_ext.so.0.0.1' 'lib/iotbx_pdb_hierarchy_ext.so'->'lib/iotbx_pdb_hierarchy_ext.so.0.0.1' Create symlinks for: 'lib/cctbx_eltbx_neutron_ext.so.0.0.1' 'lib/cctbx_eltbx_neutron_ext.so.0'->'lib/cctbx_eltbx_neutron_ext.so.0.0.1' 'lib/cctbx_eltbx_neutron_ext.so'->'lib/cctbx_eltbx_neutron_ext.so.0.0.1' g++ -o lib/cctbx_eltbx_xray_scattering_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_xray_scattering_ext.so.0 cctbx/eltbx/boost_python/xray_scattering_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm g++ -o lib/cctbx_geometry_restraints_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_geometry_restraints_ext.so.0 cctbx/geometry_restraints/geometry_restraints_ext.o cctbx/geometry_restraints/bond_bpl.o cctbx/geometry_restraints/bond_similarity_bpl.o cctbx/geometry_restraints/bond_sorted_bpl.o cctbx/geometry_restraints/nonbonded_bpl.o cctbx/geometry_restraints/nonbonded_sorted_bpl.o cctbx/geometry_restraints/angle_bpl.o cctbx/geometry_restraints/dihedral_bpl.o cctbx/geometry_restraints/chirality_bpl.o cctbx/geometry_restraints/planarity_bpl.o cctbx/geometry_restraints/parallelity_bpl.o cctbx/geometry_restraints/motif_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/cctbx_eltbx_tiny_pse_ext.so.0.0.1' 'lib/cctbx_eltbx_tiny_pse_ext.so.0'->'lib/cctbx_eltbx_tiny_pse_ext.so.0.0.1' 'lib/cctbx_eltbx_tiny_pse_ext.so'->'lib/cctbx_eltbx_tiny_pse_ext.so.0.0.1' g++ -o lib/cctbx_multipolar_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_multipolar_ext.so.0 cctbx/multipolar/aspherical_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/cctbx_multipolar_ext.so.0.0.1' 'lib/cctbx_multipolar_ext.so.0'->'lib/cctbx_multipolar_ext.so.0.0.1' 'lib/cctbx_multipolar_ext.so'->'lib/cctbx_multipolar_ext.so.0.0.1' g++ -o lib/cctbx_eltbx_attenuation_coefficient_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_attenuation_coefficient_ext.so.0 cctbx/eltbx/boost_python/attenuation_coefficient_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/cctbx_eltbx_xray_scattering_ext.so.0.0.1' 'lib/cctbx_eltbx_xray_scattering_ext.so.0'->'lib/cctbx_eltbx_xray_scattering_ext.so.0.0.1' 'lib/cctbx_eltbx_xray_scattering_ext.so'->'lib/cctbx_eltbx_xray_scattering_ext.so.0.0.1' g++ -o lib/cctbx_eltbx_icsd_radii_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_icsd_radii_ext.so.0 cctbx/eltbx/boost_python/icsd_radii_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/cctbx_eltbx_attenuation_coefficient_ext.so.0.0.1' 'lib/cctbx_eltbx_attenuation_coefficient_ext.so.0'->'lib/cctbx_eltbx_attenuation_coefficient_ext.so.0.0.1' 'lib/cctbx_eltbx_attenuation_coefficient_ext.so'->'lib/cctbx_eltbx_attenuation_coefficient_ext.so.0.0.1' g++ -o lib/cctbx_xray_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_xray_ext.so.0 cctbx/xray/boost_python/xray_ext.o cctbx/xray/boost_python/conversions.o cctbx/xray/boost_python/gradient_flags.o cctbx/xray/boost_python/gradients_direct.o cctbx/xray/boost_python/each_hkl_gradients_direct.o cctbx/xray/boost_python/fast_gradients.o cctbx/xray/boost_python/minimization.o cctbx/xray/boost_python/scatterer_flags.o cctbx/xray/boost_python/scatterer.o cctbx/xray/boost_python/scattering_type_registry.o cctbx/xray/boost_python/sampling_base.o cctbx/xray/boost_python/sampled_model_density.o cctbx/xray/boost_python/structure_factors_direct.o cctbx/xray/boost_python/structure_factors_simple.o cctbx/xray/boost_python/curvatures_simple.o cctbx/xray/boost_python/targets.o cctbx/xray/boost_python/f_model_bpl.o cctbx/xray/boost_python/twin_targets.o cctbx/xray/boost_python/grouped_data.o cctbx/xray/boost_python/parameter_map.o cctbx/xray/boost_python/twin_components.o cctbx/xray/boost_python/extinction.o cctbx/xray/boost_python/sigmaa.o cctbx/xray/targets/shelxl_wght_ls_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lomptbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/cctbx_eltbx_icsd_radii_ext.so.0.0.1' 'lib/cctbx_eltbx_icsd_radii_ext.so.0'->'lib/cctbx_eltbx_icsd_radii_ext.so.0.0.1' 'lib/cctbx_eltbx_icsd_radii_ext.so'->'lib/cctbx_eltbx_icsd_radii_ext.so.0.0.1' g++ -o lib/dxtbx_imageset_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=dxtbx_imageset_ext.so.0 dxtbx/src/dxtbx/boost_python/imageset_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/base/lib -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lm -ltiff -lboost_python313 -lcbf -lhdf5 -lboost_thread -lm -lcctbx -lscitbx_boost_python -ltiff -lboost_python313 -lcbf -lhdf5 Create symlinks for: 'lib/cctbx_crystal_ext.so.0.0.1' 'lib/cctbx_crystal_ext.so.0'->'lib/cctbx_crystal_ext.so.0.0.1' 'lib/cctbx_crystal_ext.so'->'lib/cctbx_crystal_ext.so.0.0.1' g++ -o lib/cctbx_covariance_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_covariance_ext.so.0 cctbx/covariance/boost_python/covariance_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/cctbx_adp_restraints_ext.so.0.0.1' 'lib/cctbx_adp_restraints_ext.so.0'->'lib/cctbx_adp_restraints_ext.so.0.0.1' 'lib/cctbx_adp_restraints_ext.so'->'lib/cctbx_adp_restraints_ext.so.0.0.1' Create symlinks for: 'lib/cctbx_covariance_ext.so.0.0.1' 'lib/cctbx_covariance_ext.so.0'->'lib/cctbx_covariance_ext.so.0.0.1' 'lib/cctbx_covariance_ext.so'->'lib/cctbx_covariance_ext.so.0.0.1' Create symlinks for: 'lib/dxtbx_model_ext.so.0.0.1' 'lib/dxtbx_model_ext.so.0'->'lib/dxtbx_model_ext.so.0.0.1' 'lib/dxtbx_model_ext.so'->'lib/dxtbx_model_ext.so.0.0.1' g++ -o spotfinder/dxtbx_toolbox/distl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -Ispotfinder/src -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/src -Ispotfinder/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/dxtbx_toolbox/distl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o spotfinder/core_toolbox/spot.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -Ispotfinder/src -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/src -Ispotfinder/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/core_toolbox/spot.cpp g++ -o spotfinder/core_toolbox/libdistl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -Ispotfinder/src -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/src -Ispotfinder/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/core_toolbox/libdistl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ Create symlinks for: 'lib/dxtbx_imageset_ext.so.0.0.1' 'lib/dxtbx_imageset_ext.so.0'->'lib/dxtbx_imageset_ext.so.0.0.1' 'lib/dxtbx_imageset_ext.so'->'lib/dxtbx_imageset_ext.so.0.0.1' Create symlinks for: 'lib/cctbx_xray_ext.so.0.0.1' 'lib/cctbx_xray_ext.so.0'->'lib/cctbx_xray_ext.so.0.0.1' 'lib/cctbx_xray_ext.so'->'lib/cctbx_xray_ext.so.0.0.1' g++ -o spotfinder/core_toolbox/hough.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -Ispotfinder/src -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/src -Ispotfinder/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/core_toolbox/hough.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o spotfinder/core_toolbox/distl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -Ispotfinder/src -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/src -Ispotfinder/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/core_toolbox/distl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ Create symlinks for: 'lib/cctbx_geometry_restraints_ext.so.0.0.1' 'lib/cctbx_geometry_restraints_ext.so.0'->'lib/cctbx_geometry_restraints_ext.so.0.0.1' 'lib/cctbx_geometry_restraints_ext.so'->'lib/cctbx_geometry_restraints_ext.so.0.0.1' g++ -o spotfinder/core_toolbox/spotfilter.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -Ispotfinder/src -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/src -Ispotfinder/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/core_toolbox/spotfilter.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o mmtbx/masks/atom_mask.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/masks/atom_mask.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o mmtbx/tls/decompose.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/tls/decompose.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o rstbx/dps_core/dps_core.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -Irstbx/src -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/src -Irstbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/dps_core/dps_core.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o rstbx/dps_core/directional_fft.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -Irstbx/src -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/src -Irstbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/dps_core/directional_fft.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o rstbx/dps_core/direction.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -Irstbx/src -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/src -Irstbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/dps_core/direction.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/libspotfinder.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libspotfinder.so.0 spotfinder/core_toolbox/spot.o spotfinder/core_toolbox/libdistl.o spotfinder/core_toolbox/hough.o spotfinder/core_toolbox/distl.o spotfinder/core_toolbox/spotfilter.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lann-cctbx -lomptbx -lm Create symlinks for: 'lib/libspotfinder.so.0.0.1' 'lib/libspotfinder.so.0'->'lib/libspotfinder.so.0.0.1' 'lib/libspotfinder.so'->'lib/libspotfinder.so.0.0.1' g++ -o lib/libdxtbxspotfinder.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libdxtbxspotfinder.so.0 spotfinder/dxtbx_toolbox/libdistl.o spotfinder/dxtbx_toolbox/distl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lspotfinder -lann-cctbx -lomptbx -lm g++ -o lib/libmmtbx_tls.so.0.0.1 -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread -shared -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -Wl,-soname=libmmtbx_tls.so.0 mmtbx/tls/decompose.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lm g++ -o rstbx/indexing_api/indexing_api.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -Irstbx/src -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/src -Irstbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/indexing_api/indexing_api.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ Create symlinks for: 'lib/libdxtbxspotfinder.so.0.0.1' 'lib/libdxtbxspotfinder.so.0'->'lib/libdxtbxspotfinder.so.0.0.1' 'lib/libdxtbxspotfinder.so'->'lib/libdxtbxspotfinder.so.0.0.1' g++ -o rstbx/diffraction/ewald_sphere.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -Irstbx/src -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/src -Irstbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/ewald_sphere.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ Create symlinks for: 'lib/libmmtbx_tls.so.0.0.1' 'lib/libmmtbx_tls.so.0'->'lib/libmmtbx_tls.so.0.0.1' 'lib/libmmtbx_tls.so'->'lib/libmmtbx_tls.so.0.0.1' g++ -o rstbx/diffraction/partial_spot_position_partial_H.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -Irstbx/src -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/src -Irstbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/partial_spot_position_partial_H.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/minpack/raw.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/minpack/raw.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ gcc -o scitbx/slatec/lib_c.o -c -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/slatec/lib_c.c g++ -o lib/libscitbx_slatec.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libscitbx_slatec.so.0 scitbx/slatec/lib_c.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread -lm Create symlinks for: 'lib/libscitbx_slatec.so.0.0.1' 'lib/libscitbx_slatec.so.0'->'lib/libscitbx_slatec.so.0.0.1' 'lib/libscitbx_slatec.so'->'lib/libscitbx_slatec.so.0.0.1' g++ -o smtbx/refinement/constraints/affine.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints/affine.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/constraints/geometrical_hydrogens.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints/geometrical_hydrogens.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/libscitbx_minpack.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libscitbx_minpack.so.0 scitbx/minpack/raw.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread -lm Create symlinks for: 'lib/libscitbx_minpack.so.0.0.1' 'lib/libscitbx_minpack.so.0'->'lib/libscitbx_minpack.so.0.0.1' 'lib/libscitbx_minpack.so'->'lib/libscitbx_minpack.so.0.0.1' g++ -o smtbx/refinement/constraints/occupancy.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints/occupancy.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/constraints/reparametrisation.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints/reparametrisation.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/librstbx.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=librstbx.so.0 rstbx/dps_core/dps_core.o rstbx/dps_core/directional_fft.o rstbx/dps_core/direction.o rstbx/indexing_api/indexing_api.o rstbx/diffraction/ewald_sphere.o rstbx/diffraction/partial_spot_position_partial_H.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread -lcctbx -lm Create symlinks for: 'lib/librstbx.so.0.0.1' 'lib/librstbx.so.0'->'lib/librstbx.so.0.0.1' 'lib/librstbx.so'->'lib/librstbx.so.0.0.1' g++ -o smtbx/refinement/constraints/rigid.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints/rigid.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/constraints/same_group.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints/same_group.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/constraints/scaled_adp.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints/scaled_adp.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/constraints/shared.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints/shared.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/constraints/special_position.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints/special_position.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/constraints/symmetry_equivalent.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints/symmetry_equivalent.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/constraints/u_eq_dependent_u_iso.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints/u_eq_dependent_u_iso.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/constraints/u_iso_dependent_u_iso.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints/u_iso_dependent_u_iso.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/libmmtbx_masks.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libmmtbx_masks.so.0 mmtbx/masks/atom_mask.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lomptbx -lcctbx_sgtbx_asu -lm Create symlinks for: 'lib/libmmtbx_masks.so.0.0.1' 'lib/libmmtbx_masks.so.0'->'lib/libmmtbx_masks.so.0.0.1' 'lib/libmmtbx_masks.so'->'lib/libmmtbx_masks.so.0.0.1' g++ -o mmtbx/alignment/alignment_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/alignment/alignment_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o mmtbx/building/loop_closure/ccd_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/building/loop_closure/ccd_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o mmtbx/bulk_solvent/bulk_solvent_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/bulk_solvent/bulk_solvent_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o mmtbx/bulk_solvent/bulk_solvent.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/bulk_solvent/bulk_solvent.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o mmtbx/den/boost_python/den_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/den/boost_python/den_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/libsmtbx_refinement_constraints.so.0.0.1 -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread -shared -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -Wl,-soname=libsmtbx_refinement_constraints.so.0 smtbx/refinement/constraints/affine.o smtbx/refinement/constraints/geometrical_hydrogens.o smtbx/refinement/constraints/occupancy.o smtbx/refinement/constraints/reparametrisation.o smtbx/refinement/constraints/rigid.o smtbx/refinement/constraints/same_group.o smtbx/refinement/constraints/scaled_adp.o smtbx/refinement/constraints/shared.o smtbx/refinement/constraints/special_position.o smtbx/refinement/constraints/symmetry_equivalent.o smtbx/refinement/constraints/u_eq_dependent_u_iso.o smtbx/refinement/constraints/u_iso_dependent_u_iso.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread Create symlinks for: 'lib/libsmtbx_refinement_constraints.so.0.0.1' 'lib/libsmtbx_refinement_constraints.so.0'->'lib/libsmtbx_refinement_constraints.so.0.0.1' 'lib/libsmtbx_refinement_constraints.so'->'lib/libsmtbx_refinement_constraints.so.0.0.1' g++ -o mmtbx/secondary_structure/dssp_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/secondary_structure/dssp_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o mmtbx/dynamics/dynamics_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/dynamics/dynamics_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_alignment_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_alignment_ext.so.0 mmtbx/alignment/alignment_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/mmtbx_alignment_ext.so.0.0.1' 'lib/mmtbx_alignment_ext.so.0'->'lib/mmtbx_alignment_ext.so.0.0.1' 'lib/mmtbx_alignment_ext.so'->'lib/mmtbx_alignment_ext.so.0.0.1' g++ -o mmtbx/dynamics/dynamics.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/dynamics/dynamics.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/wyckoff.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/sym_equiv_sites.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/crystal/direct_space_asu.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/asu_cache.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/bond.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/den/den.h:2, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/den/boost_python/den_ext.cpp:12: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here 203 | new tensor_rank_3_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here 214 | new tensor_rank_4_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/assert.hpp:64, from /usr/include/boost/smart_ptr/shared_array.hpp:21, from /usr/include/boost/shared_array.hpp:17, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensor_rank_2.h:9, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:5: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = mmtbx::den::den_simple_proxy; GetitemReturnValuePolicy = boost::python::return_internal_reference<>; std::string = std::__cxx11::basic_string]’ 130 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 131 | w_t, | ~~~~ 132 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/den/boost_python/den_ext.cpp:53:78: required from here 53 | scitbx::af::boost_python::shared_wrapper::wrap( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 54 | "shared_den_simple_proxy") | ~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ g++ -o mmtbx/f_model/f_model_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/f_model/f_model_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_dssp_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_dssp_ext.so.0 mmtbx/secondary_structure/dssp_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -liotbx_pdb -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/mmtbx_dssp_ext.so.0.0.1' 'lib/mmtbx_dssp_ext.so.0'->'lib/mmtbx_dssp_ext.so.0.0.1' 'lib/mmtbx_dssp_ext.so'->'lib/mmtbx_dssp_ext.so.0.0.1' g++ -o mmtbx/geometry/boost_python/asa_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/geometry/boost_python/asa_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_building_loop_closure_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_building_loop_closure_ext.so.0 mmtbx/building/loop_closure/ccd_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -liotbx_pdb -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/mmtbx_building_loop_closure_ext.so.0.0.1' 'lib/mmtbx_building_loop_closure_ext.so.0'->'lib/mmtbx_building_loop_closure_ext.so.0.0.1' 'lib/mmtbx_building_loop_closure_ext.so'->'lib/mmtbx_building_loop_closure_ext.so.0.0.1' g++ -o mmtbx/geometry/boost_python/clash_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/geometry/boost_python/clash_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_dynamics_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_dynamics_ext.so.0 mmtbx/dynamics/dynamics_ext.o mmtbx/dynamics/dynamics.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/mmtbx_dynamics_ext.so.0.0.1' 'lib/mmtbx_dynamics_ext.so.0'->'lib/mmtbx_dynamics_ext.so.0.0.1' 'lib/mmtbx_dynamics_ext.so'->'lib/mmtbx_dynamics_ext.so.0.0.1' g++ -o mmtbx/geometry/boost_python/indexing_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/geometry/boost_python/indexing_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /usr/include/boost/smart_ptr/detail/deprecated_macros.hpp:8, from /usr/include/boost/smart_ptr/detail/sp_counted_base.hpp:20, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:22, from /usr/include/boost/smart_ptr/shared_ptr.hpp:17, from /usr/include/boost/shared_ptr.hpp:17, from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, from /usr/include/boost/python/converter/arg_to_python.hpp:15, from /usr/include/boost/python/call.hpp:15, from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object/class.hpp:9, from /usr/include/boost/python/class.hpp:13, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/geometry/boost_python/clash_ext.cpp:2: /usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/smart_ptr/detail/deprecated_macros.hpp:8, from /usr/include/boost/smart_ptr/detail/sp_counted_base.hpp:20, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:22, from /usr/include/boost/smart_ptr/shared_ptr.hpp:17, from /usr/include/boost/shared_ptr.hpp:17, from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, from /usr/include/boost/python/converter/arg_to_python.hpp:15, from /usr/include/boost/python/call.hpp:15, from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object/class.hpp:9, from /usr/include/boost/python/class.hpp:13, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/geometry/boost_python/asa_ext.cpp:2: /usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ g++ -o lib/mmtbx_den_restraints_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_den_restraints_ext.so.0 mmtbx/den/boost_python/den_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/mmtbx_den_restraints_ext.so.0.0.1' 'lib/mmtbx_den_restraints_ext.so.0'->'lib/mmtbx_den_restraints_ext.so.0.0.1' 'lib/mmtbx_den_restraints_ext.so'->'lib/mmtbx_den_restraints_ext.so.0.0.1' g++ -o mmtbx/geometry/boost_python/primitive_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/geometry/boost_python/primitive_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /usr/include/boost/smart_ptr/detail/deprecated_macros.hpp:8, from /usr/include/boost/smart_ptr/detail/sp_counted_base.hpp:20, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:22, from /usr/include/boost/smart_ptr/shared_ptr.hpp:17, from /usr/include/boost/shared_ptr.hpp:17, from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, from /usr/include/boost/python/converter/arg_to_python.hpp:15, from /usr/include/boost/python/call.hpp:15, from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/extract.hpp:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/geometry/boost_python/indexing_ext.cpp:2: /usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ g++ -o lib/mmtbx_f_model_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_f_model_ext.so.0 mmtbx/f_model/f_model_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/mmtbx_f_model_ext.so.0.0.1' 'lib/mmtbx_f_model_ext.so.0'->'lib/mmtbx_f_model_ext.so.0.0.1' 'lib/mmtbx_f_model_ext.so'->'lib/mmtbx_f_model_ext.so.0.0.1' g++ -o mmtbx/geometry/boost_python/shared_types_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/geometry/boost_python/shared_types_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_geometry_primitive_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_geometry_primitive_ext.so.0 mmtbx/geometry/boost_python/primitive_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/mmtbx_geometry_primitive_ext.so.0.0.1' 'lib/mmtbx_geometry_primitive_ext.so.0'->'lib/mmtbx_geometry_primitive_ext.so.0.0.1' 'lib/mmtbx_geometry_primitive_ext.so'->'lib/mmtbx_geometry_primitive_ext.so.0.0.1' g++ -o mmtbx/geometry/boost_python/sphere_surface_sampling_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/geometry/boost_python/sphere_surface_sampling_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /usr/include/boost/smart_ptr/detail/deprecated_macros.hpp:8, from /usr/include/boost/smart_ptr/detail/sp_counted_base.hpp:20, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:22, from /usr/include/boost/smart_ptr/shared_ptr.hpp:17, from /usr/include/boost/shared_ptr.hpp:17, from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, from /usr/include/boost/python/converter/arg_to_python.hpp:15, from /usr/include/boost/python/call.hpp:15, from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object/class.hpp:9, from /usr/include/boost/python/class.hpp:13, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/geometry/boost_python/shared_types_ext.cpp:2: /usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ g++ -o lib/mmtbx_bulk_solvent_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_bulk_solvent_ext.so.0 mmtbx/bulk_solvent/bulk_solvent_ext.o mmtbx/bulk_solvent/bulk_solvent.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm g++ -o lib/mmtbx_geometry_shared_types_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_geometry_shared_types_ext.so.0 mmtbx/geometry/boost_python/shared_types_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/mmtbx_bulk_solvent_ext.so.0.0.1' 'lib/mmtbx_bulk_solvent_ext.so.0'->'lib/mmtbx_bulk_solvent_ext.so.0.0.1' 'lib/mmtbx_bulk_solvent_ext.so'->'lib/mmtbx_bulk_solvent_ext.so.0.0.1' Create symlinks for: 'lib/mmtbx_geometry_shared_types_ext.so.0.0.1' 'lib/mmtbx_geometry_shared_types_ext.so.0'->'lib/mmtbx_geometry_shared_types_ext.so.0.0.1' 'lib/mmtbx_geometry_shared_types_ext.so'->'lib/mmtbx_geometry_shared_types_ext.so.0.0.1' g++ -o mmtbx/hydrogens/hydrogens_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/hydrogens/hydrogens_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o mmtbx/masks/masks_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/masks/masks_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_geometry_sphere_surface_sampling_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_geometry_sphere_surface_sampling_ext.so.0 mmtbx/geometry/boost_python/sphere_surface_sampling_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/mmtbx_geometry_sphere_surface_sampling_ext.so.0.0.1' 'lib/mmtbx_geometry_sphere_surface_sampling_ext.so.0'->'lib/mmtbx_geometry_sphere_surface_sampling_ext.so.0.0.1' 'lib/mmtbx_geometry_sphere_surface_sampling_ext.so'->'lib/mmtbx_geometry_sphere_surface_sampling_ext.so.0.0.1' g++ -o mmtbx/max_lik/max_lik_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/max_lik/max_lik_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_geometry_indexing_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_geometry_indexing_ext.so.0 mmtbx/geometry/boost_python/indexing_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/mmtbx_geometry_indexing_ext.so.0.0.1' 'lib/mmtbx_geometry_indexing_ext.so.0'->'lib/mmtbx_geometry_indexing_ext.so.0.0.1' 'lib/mmtbx_geometry_indexing_ext.so'->'lib/mmtbx_geometry_indexing_ext.so.0.0.1' g++ -o mmtbx/max_lik/max_lik.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/max_lik/max_lik.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_geometry_clash_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_geometry_clash_ext.so.0 mmtbx/geometry/boost_python/clash_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/mmtbx_geometry_clash_ext.so.0.0.1' 'lib/mmtbx_geometry_clash_ext.so.0'->'lib/mmtbx_geometry_clash_ext.so.0.0.1' 'lib/mmtbx_geometry_clash_ext.so'->'lib/mmtbx_geometry_clash_ext.so.0.0.1' g++ -o mmtbx/bulk_solvent/mosaic_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/bulk_solvent/mosaic_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_hydrogens_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_hydrogens_ext.so.0 mmtbx/hydrogens/hydrogens_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/mmtbx_hydrogens_ext.so.0.0.1' 'lib/mmtbx_hydrogens_ext.so.0'->'lib/mmtbx_hydrogens_ext.so.0.0.1' 'lib/mmtbx_hydrogens_ext.so'->'lib/mmtbx_hydrogens_ext.so.0.0.1' g++ -o mmtbx/ncs/cartesian_restraints_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/ncs/cartesian_restraints_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o mmtbx/ncs/tncs_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/ncs/tncs_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_masks_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_masks_ext.so.0 mmtbx/masks/masks_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lmmtbx_masks -lcctbx_sgtbx_asu -lcctbx -lomptbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/mmtbx_masks_ext.so.0.0.1' 'lib/mmtbx_masks_ext.so.0'->'lib/mmtbx_masks_ext.so.0.0.1' 'lib/mmtbx_masks_ext.so'->'lib/mmtbx_masks_ext.so.0.0.1' g++ -o mmtbx/pair_interaction/interaction_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/pair_interaction/interaction_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_mosaic_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_mosaic_ext.so.0 mmtbx/bulk_solvent/mosaic_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/mmtbx_mosaic_ext.so.0.0.1' 'lib/mmtbx_mosaic_ext.so.0'->'lib/mmtbx_mosaic_ext.so.0.0.1' 'lib/mmtbx_mosaic_ext.so'->'lib/mmtbx_mosaic_ext.so.0.0.1' g++ -o mmtbx/probe/boost_python/probe_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/probe/boost_python/probe_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_ncs_cartesian_restraints_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_ncs_cartesian_restraints_ext.so.0 mmtbx/ncs/cartesian_restraints_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/mmtbx_ncs_cartesian_restraints_ext.so.0.0.1' 'lib/mmtbx_ncs_cartesian_restraints_ext.so.0'->'lib/mmtbx_ncs_cartesian_restraints_ext.so.0.0.1' 'lib/mmtbx_ncs_cartesian_restraints_ext.so'->'lib/mmtbx_ncs_cartesian_restraints_ext.so.0.0.1' g++ -o mmtbx/probe/Scoring.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/probe/Scoring.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_max_lik_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_max_lik_ext.so.0 mmtbx/max_lik/max_lik_ext.o mmtbx/max_lik/max_lik.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/mmtbx_max_lik_ext.so.0.0.1' 'lib/mmtbx_max_lik_ext.so.0'->'lib/mmtbx_max_lik_ext.so.0.0.1' 'lib/mmtbx_max_lik_ext.so'->'lib/mmtbx_max_lik_ext.so.0.0.1' g++ -o mmtbx/probe/DotSpheres.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/probe/DotSpheres.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_geometry_asa_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_geometry_asa_ext.so.0 mmtbx/geometry/boost_python/asa_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/mmtbx_geometry_asa_ext.so.0.0.1' 'lib/mmtbx_geometry_asa_ext.so.0'->'lib/mmtbx_geometry_asa_ext.so.0.0.1' 'lib/mmtbx_geometry_asa_ext.so'->'lib/mmtbx_geometry_asa_ext.so.0.0.1' g++ -o mmtbx/probe/SpatialQuery.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/probe/SpatialQuery.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o mmtbx/geometry_restraints/boost_python/ramachandran_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/geometry_restraints/boost_python/ramachandran_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_ncs_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_ncs_ext.so.0 mmtbx/ncs/tncs_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/mmtbx_ncs_ext.so.0.0.1' 'lib/mmtbx_ncs_ext.so.0'->'lib/mmtbx_ncs_ext.so.0.0.1' 'lib/mmtbx_ncs_ext.so'->'lib/mmtbx_ncs_ext.so.0.0.1' g++ -o mmtbx/reduce/boost_python/reduce_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/reduce/boost_python/reduce_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o mmtbx/reduce/PositionReturn.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/reduce/PositionReturn.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_pair_interaction_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_pair_interaction_ext.so.0 mmtbx/pair_interaction/interaction_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/xray/scatterer.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/restraints.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/dihedral.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/geometry_restraints/ramachandran.h:10, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/geometry_restraints/boost_python/ramachandran_ext.cpp:11: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i'lib/mmtbx_pair_interaction_ext.so.0.0.1' 'lib/mmtbx_pair_interaction_ext.so'->'lib/mmtbx_pair_interaction_ext.so.0.0.1' g++ -o mmtbx/reduce/InteractionGraph.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/reduce/InteractionGraph.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/geometry_restraints/ramachandran.h: In instantiation of ‘scitbx::af::tiny mmtbx::geometry_restraints::target_phi_psi(const scitbx::af::const_ref, scitbx::af::trivial_accessor>&, const scitbx::af::const_ref, scitbx::af::trivial_accessor>&, const phi_psi_proxy&) [with FloatType = double]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/geometry_restraints/ramachandran.h:314:35: required from here 314 | r = target_phi_psi(general_table, sites_cart, proxy);} | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/geometry_restraints/ramachandran.h:269:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref, scitbx::af::trivial_accessor>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 269 | for(int i=0; i, scitbx::af::trivial_accessor>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 284 | for(int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here 203 | new tensor_rank_3_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here 214 | new tensor_rank_4_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/assert.hpp:64, from /usr/include/boost/format/parsing.hpp:21, from /usr/include/boost/format.hpp:50, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/dihedral.h:8: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = mmtbx::geometry_restraints::phi_psi_proxy; GetitemReturnValuePolicy = boost::python::return_internal_reference<>; std::string = std::__cxx11::basic_string]’ 130 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 131 | w_t, | ~~~~ 132 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/geometry_restraints/boost_python/ramachandran_ext.cpp:52:75: required from here 52 | scitbx::af::boost_python::shared_wrapper::wrap( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 53 | "shared_phi_psi_proxy") | ~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ ar rc probe/lib/libprobelib.a mmtbx/probe/Scoring.o mmtbx/probe/DotSpheres.o mmtbx/probe/SpatialQuery.o ranlib probe/lib/libprobelib.a g++ -o mmtbx/reduce/Optimizers.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/reduce/Optimizers.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o mmtbx/geometry_restraints/boost_python/reference_coordinate_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/geometry_restraints/boost_python/reference_coordinate_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/wyckoff.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/sym_equiv_sites.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/crystal/direct_space_asu.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/asu_cache.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/bond.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/geometry_restraints/reference_coordinate.h:2, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/geometry_restraints/boost_python/reference_coordinate_ext.cpp:13: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i cctbx::geometry_restraints::shared_proxy_remove(const scitbx::af::const_ref&, const scitbx::af::const_ref&) [with ProxyType = mmtbx::geometry_restraints::reference_coordinate_proxy]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/geometry_restraints/boost_python/reference_coordinate_ext.cpp:80:41: required from here 80 | cctbx::geometry_restraints::shared_proxy_remove, ( | ^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/geometry_restraints/proxy_select.h:187:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 187 | if (match_ctr != i_seqs.size()) { | ~~~~~~~~~~^~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:6: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here 203 | new tensor_rank_3_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ 47 | initialize(symmetry_matrices, i_first_matrix_to_use, reciprocal_space); | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here 214 | new tensor_rank_4_constraints_t(matrices_.const_ref(), 1, true)); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 185 | for (int j = 0; j < tensor_t::size(); j++) { | ~~^~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/assert.hpp:64, from /usr/include/boost/smart_ptr/shared_array.hpp:21, from /usr/include/boost/shared_array.hpp:17, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/tensor_rank_2.h:9, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/cctbx/sgtbx/site_symmetry.h:5: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = mmtbx::geometry_restraints::reference_coordinate_proxy; GetitemReturnValuePolicy = boost::python::return_internal_reference<>; std::string = std::__cxx11::basic_string]’ 130 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 131 | w_t, | ~~~~ 132 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/geometry_restraints/boost_python/reference_coordinate_ext.cpp:61:25: required from here 61 | shared_w_t::wrap( | ~~~~~~~~~~~~~~~~^ 62 | "shared_reference_coordinate_proxy") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ g++ -o lib/mmtbx_probe_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_probe_ext.so.0 mmtbx/probe/boost_python/probe_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Lprobe/lib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/probe/lib -lprobelib -liotbx_pdb -lcctbx -lscitbx_boost_python -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/mmtbx_probe_ext.so.0.0.1' 'lib/mmtbx_probe_ext.so.0'->'lib/mmtbx_probe_ext.so.0.0.1' 'lib/mmtbx_probe_ext.so'->'lib/mmtbx_probe_ext.so.0.0.1' g++ -o mmtbx/rsr/rsr_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/rsr/rsr_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_ramachandran_restraints_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_ramachandran_restraints_ext.so.0 mmtbx/geometry_restraints/boost_python/ramachandran_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/mmtbx_ramachandran_restraints_ext.so.0.0.1' 'lib/mmtbx_ramachandran_restraints_ext.so.0'->'lib/mmtbx_ramachandran_restraints_ext.so.0.0.1' 'lib/mmtbx_ramachandran_restraints_ext.so'->'lib/mmtbx_ramachandran_restraints_ext.so.0.0.1' g++ -o mmtbx/scaling/scaling_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/scaling/scaling_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_reference_coordinate_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_reference_coordinate_ext.so.0 mmtbx/geometry_restraints/boost_python/reference_coordinate_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/mmtbx_reference_coordinate_ext.so.0.0.1' 'lib/mmtbx_reference_coordinate_ext.so.0'->'lib/mmtbx_reference_coordinate_ext.so.0.0.1' 'lib/mmtbx_reference_coordinate_ext.so'->'lib/mmtbx_reference_coordinate_ext.so.0.0.1' g++ -o mmtbx/scaling/twinning_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/scaling/twinning_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_rsr_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_rsr_ext.so.0 mmtbx/rsr/rsr_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/mmtbx_rsr_ext.so.0.0.1' 'lib/mmtbx_rsr_ext.so.0'->'lib/mmtbx_rsr_ext.so.0.0.1' 'lib/mmtbx_rsr_ext.so'->'lib/mmtbx_rsr_ext.so.0.0.1' g++ -o mmtbx/scaling/relative_scaling_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/scaling/relative_scaling_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_rotamer_fit_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_rotamer_fit_ext.so.0 mmtbx/rotamer/fit_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/mmtbx_rotamer_fit_ext.so.0.0.1' 'lib/mmtbx_rotamer_fit_ext.so.0'->'lib/mmtbx_rotamer_fit_ext.so.0.0.1' 'lib/mmtbx_rotamer_fit_ext.so'->'lib/mmtbx_rotamer_fit_ext.so.0.0.1' g++ -o mmtbx/scaling/outlier_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/scaling/outlier_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ ar rc reduce/lib/libreduce2lib.a mmtbx/reduce/PositionReturn.o mmtbx/reduce/InteractionGraph.o mmtbx/reduce/Optimizers.o ranlib reduce/lib/libreduce2lib.a g++ -o mmtbx/secondary_structure/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/secondary_structure/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_secondary_structure_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_secondary_structure_ext.so.0 mmtbx/secondary_structure/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -liotbx_pdb -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/mmtbx_secondary_structure_ext.so.0.0.1' 'lib/mmtbx_secondary_structure_ext.so.0'->'lib/mmtbx_secondary_structure_ext.so.0.0.1' 'lib/mmtbx_secondary_structure_ext.so'->'lib/mmtbx_secondary_structure_ext.so.0.0.1' g++ -o mmtbx/tls/decompose_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/tls/decompose_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o mmtbx/tls/tls_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/tls/tls_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o mmtbx/tls/optimise_amplitudes.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/tls/optimise_amplitudes.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_reduce_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_reduce_ext.so.0 mmtbx/reduce/boost_python/reduce_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Lreduce/lib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/reduce/lib -Lprobe/lib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/probe/lib -lreduce2lib -lprobelib -liotbx_pdb -lcctbx -lscitbx_boost_python -lscitbx_boost_python -lboost_thread -lboost_python313 -lm g++ -o lib/mmtbx_tls_decompose_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_tls_decompose_ext.so.0 mmtbx/tls/decompose_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lmmtbx_tls -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/mmtbx_tls_decompose_ext.so.0.0.1' 'lib/mmtbx_tls_decompose_ext.so.0'->'lib/mmtbx_tls_decompose_ext.so.0.0.1' 'lib/mmtbx_tls_decompose_ext.so'->'lib/mmtbx_tls_decompose_ext.so.0.0.1' g++ -o mmtbx/tls/optimise_amplitudes_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/tls/optimise_amplitudes_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ Create symlinks for: 'lib/mmtbx_reduce_ext.so.0.0.1' 'lib/mmtbx_reduce_ext.so.0'->'lib/mmtbx_reduce_ext.so.0.0.1' 'lib/mmtbx_reduce_ext.so'->'lib/mmtbx_reduce_ext.so.0.0.1' g++ -o mmtbx/tls/utils.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/tls/utils.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o mmtbx/tls/utils_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/tls/utils_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o mmtbx/utils/utils_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/utils/utils_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_tls_optimise_amplitudes_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_tls_optimise_amplitudes_ext.so.0 mmtbx/tls/optimise_amplitudes.o mmtbx/tls/optimise_amplitudes_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lmmtbx_tls -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/mmtbx_tls_optimise_amplitudes_ext.so.0.0.1' 'lib/mmtbx_tls_optimise_amplitudes_ext.so.0'->'lib/mmtbx_tls_optimise_amplitudes_ext.so.0.0.1' 'lib/mmtbx_tls_optimise_amplitudes_ext.so'->'lib/mmtbx_tls_optimise_amplitudes_ext.so.0.0.1' g++ -o mmtbx/validation/ramachandran/rama_eval_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/validation/ramachandran/rama_eval_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_scaling_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_scaling_ext.so.0 mmtbx/scaling/scaling_ext.o mmtbx/scaling/twinning_bpl.o mmtbx/scaling/relative_scaling_bpl.o mmtbx/scaling/outlier_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/mmtbx_scaling_ext.so.0.0.1' 'lib/mmtbx_scaling_ext.so.0'->'lib/mmtbx_scaling_ext.so.0.0.1' 'lib/mmtbx_scaling_ext.so'->'lib/mmtbx_scaling_ext.so.0.0.1' g++ -o omptbx/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/omptbx/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o rstbx/array_family/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -Irstbx/src -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/src -Irstbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/array_family/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o rstbx/array_family/flex_rstbx_arrays.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -Irstbx/src -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/src -Irstbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/array_family/flex_rstbx_arrays.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/omptbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=omptbx_ext.so.0 omptbx/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lomptbx -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/omptbx_ext.so.0.0.1' 'lib/omptbx_ext.so.0'->'lib/omptbx_ext.so.0.0.1' 'lib/omptbx_ext.so'->'lib/omptbx_ext.so.0.0.1' g++ -o rstbx/bandpass/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -Irstbx/bandpass/src -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/src -Irstbx/bandpass/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_validation_ramachandran_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_validation_ramachandran_ext.so.0 mmtbx/validation/ramachandran/rama_eval_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/mmtbx_validation_ramachandran_ext.so.0.0.1' 'lib/mmtbx_validation_ramachandran_ext.so.0'->'lib/mmtbx_validation_ramachandran_ext.so.0.0.1' 'lib/mmtbx_validation_ramachandran_ext.so'->'lib/mmtbx_validation_ramachandran_ext.so.0.0.1' g++ -o rstbx/bpcx/detector_model/detector_model_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -Irstbx/bpcx/src -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bpcx/src -Irstbx/bpcx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bpcx/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bpcx/detector_model/detector_model_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_utils_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_utils_ext.so.0 mmtbx/utils/utils_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/mmtbx_utils_ext.so.0.0.1' 'lib/mmtbx_utils_ext.so.0'->'lib/mmtbx_utils_ext.so.0.0.1' 'lib/mmtbx_utils_ext.so'->'lib/mmtbx_utils_ext.so.0.0.1' g++ -o rstbx/bpcx/detector_model/sensor.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -Irstbx/bpcx/src -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bpcx/src -Irstbx/bpcx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bpcx/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bpcx/detector_model/sensor.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp:10: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/parameters.h: In constructor ‘rstbx::bandpass::active_area_filter::active_area_filter(scitbx::af::shared)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/parameters.h:100:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i < tiles.size()/4; ++i){ | ~~^~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:31, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/parameters.h:3: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/parameters.h: In member function ‘bool rstbx::bandpass::active_area_filter::operator()(rstbx::bandpass::vec3, const int&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/parameters.h:126:39: warning: comparison of integer expressions of different signedness: ‘scitbx::af::versa_plain >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 126 | SCITBX_ASSERT( adapt.nn.size()== NEAR); | ~~~~~~~~~~~~~~~^~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/parameters.h:126:9: note: in expansion of macro ‘SCITBX_ASSERT’ 126 | SCITBX_ASSERT( adapt.nn.size()== NEAR); | ^~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp:11: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/subpixel_joint_model.h: In member function ‘void rstbx::bandpass::subpixel_joint_model::set_subpixel(scitbx::af::shared, scitbx::af::shared)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/subpixel_joint_model.h:26:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 26 | for (int ixx=0; ixx< rotations_deg.size(); ++ixx){ | ~~~^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/subpixel_joint_model.h:31:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 31 | for (int ixx=0; ixx< rotations_deg.size(); ++ixx){ | ~~~^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp: In member function ‘void rstbx::bandpass::use_case_bp3::prescreen_indices(const double&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp:46:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 46 | for (int idx = 0; idx < P.indices.size(); ++idx){ | ~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp: In member function ‘scitbx::af::shared rstbx::bandpass::use_case_bp3::selected_partialities() const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp:93:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 93 | for (int idx = 0; idx < lo_E_limit.size(); ++idx){ | ~~~~^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp: In member function ‘void rstbx::bandpass::use_case_bp3::picture_fast_slow()’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp:152:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 152 | for (int idx = 0; idx < P.indices.size(); ++idx){ | ~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp: In member function ‘void rstbx::bandpass::use_case_bp3::picture_fast_slow_force()’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp:296:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 296 | for (int idx = 0; idx < P.indices.size(); ++idx){ | ~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp:462:30: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 462 | for ( int idx = 0; idx < P.indices.size(); ++idx){ | ~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp: In member function ‘scitbx::af::shared > rstbx::bandpass::use_case_bp3::spot_rectangles(rstbx::bandpass::vec3ref)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp:477:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 477 | for (int idx = 0; idx < lo_E_limit.size(); ++idx){ | ~~~~^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp: In member function ‘scitbx::af::shared > rstbx::bandpass::use_case_bp3::spot_rectregions(rstbx::bandpass::vec3ref, const double&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp:511:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 511 | for (int idx = 0; idx < lo_E_limit.size(); ++idx){ | ~~~~^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp: In member function ‘scitbx::af::shared > rstbx::bandpass::use_case_bp3::enclosed_pixels() const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp:543:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 543 | for (int idx = 0; idx < spot_rectangle_vertices.size(); idx+=5){ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp: In member function ‘scitbx::af::shared > rstbx::bandpass::use_case_bp3::selected_hi_predictions() const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp:752:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 752 | for (int idx = 0; idx < lo_E_limit.size(); ++idx){ | ~~~~^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp: In member function ‘scitbx::af::shared > rstbx::bandpass::use_case_bp3::selected_lo_predictions() const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp:763:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 763 | for (int idx = 0; idx < lo_E_limit.size(); ++idx){ | ~~~~^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp: In member function ‘scitbx::af::shared > rstbx::bandpass::use_case_bp3::selected_predictions() const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp:774:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 774 | for (int idx = 0; idx < lo_E_limit.size(); ++idx){ | ~~~~^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp: In member function ‘scitbx::af::shared > rstbx::bandpass::use_case_bp3::selected_predictions_labelit_format() const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp:787:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 787 | for (int idx = 0; idx < lo_E_limit.size(); ++idx){ | ~~~~^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp: In member function ‘scitbx::af::shared > rstbx::bandpass::use_case_bp3::selected_hkls() const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp:802:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 802 | for (int idx = 0; idx < lo_E_limit.size(); ++idx){ | ~~~~^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp: In member function ‘scitbx::af::shared > rstbx::bandpass::use_case_bp3::restricted_to_active_areas(scitbx::af::shared, scitbx::af::shared >) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp:815:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 815 | for (int idx = 0; idx < active_areas.size(); idx+=4){ | ~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp: In member function ‘void rstbx::bandpass::use_case_bp3::set_subpixel(scitbx::af::shared, scitbx::af::shared)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp:828:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 828 | for (int ixx=0; ixx< rotations_deg.size(); ++ixx){ //DEPRECATED | ~~~^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp: In function ‘scitbx::af::shared > rstbx::bandpass::ext::use_case_bp2_picture_fast_slow(scitbx::af::shared >, const cctbx::crystal_orientation&, const scitbx::vec3&, const double&, const scitbx::vec3&, const scitbx::vec3&, const scitbx::vec3&, const scitbx::vec3&, const scitbx::vec3&, const double&, const scitbx::vec3&, const double&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp:933:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 933 | for (int idx = 0; idx < indices.size(); ++idx){ | ~~~~^~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp: In instantiation of ‘void rstbx::bandpass::use_case_bp3::enclosed_pixels_and_margin_pixels_detail() [with pixel_accept_policy = resolution_limited_pixel_accept_policy]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp:616:87: required from here 616 | enclosed_pixels_and_margin_pixels_detail(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp:631:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 631 | for (int idx = 0; idx < spot_rectangle_vertices.size(); idx+=5){ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp: In instantiation of ‘void rstbx::bandpass::use_case_bp3::enclosed_pixels_and_margin_pixels_detail() [with pixel_accept_policy = unlimited_pixel_accept_policy]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp:620:78: required from here 620 | enclosed_pixels_and_margin_pixels_detail(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp:631:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 631 | for (int idx = 0; idx < spot_rectangle_vertices.size(); idx+=5){ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -o rstbx/diffraction/fastbragg/fastbragg_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -Irstbx/diffraction/fastbragg/src -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/fastbragg/src -Irstbx/diffraction/fastbragg/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/fastbragg/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/fastbragg/fastbragg_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_tls_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_tls_ext.so.0 mmtbx/tls/tls_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lmmtbx_tls -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/mmtbx_tls_ext.so.0.0.1' 'lib/mmtbx_tls_ext.so.0'->'lib/mmtbx_tls_ext.so.0.0.1' 'lib/mmtbx_tls_ext.so'->'lib/mmtbx_tls_ext.so.0.0.1' g++ -o rstbx/diffraction/fastbragg/fastbragg.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -Irstbx/diffraction/fastbragg/src -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/fastbragg/src -Irstbx/diffraction/fastbragg/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/fastbragg/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/fastbragg/fastbragg.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h: In constructor ‘scitbx::af::shared_plain::shared_plain(const size_type&) [with ElementType = scitbx::vec3]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:132:34: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/15/memory:71, from /usr/include/boost/config/no_tr1/memory.hpp:21, from /usr/include/boost/get_pointer.hpp:14, from /usr/include/boost/python/object/pointer_holder.hpp:11, from /usr/include/boost/python/to_python_indirect.hpp:10, from /usr/include/boost/python/converter/arg_to_python.hpp:10, from /usr/include/boost/python/call.hpp:15, from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object.hpp:9, from /usr/include/boost/python/scope.hpp:9, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/bandpass/ext.cpp:4: /usr/include/c++/15/bits/stl_uninitialized.h:526:5: note: by argument 3 of type ‘const scitbx::vec3&’ to ‘_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = scitbx::vec3*; _Size = long unsigned int; _Tp = scitbx::vec3]’ declared here 526 | uninitialized_fill_n(_ForwardIterator __first, _Size __n, const _Tp& __x) | ^~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:132:48: note: ‘’ declared here 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); | ^~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/fastbragg/fastbragg.cpp:1: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h: In member function ‘scitbx::af::versa > rstbx::diffraction::fastbragg::detector::intdata()’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h:89:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::versa_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 89 | for (int count = 0; count < raw.size(); ++count){ | ~~~~~~^~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/vec3.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h:8: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h: In member function ‘scitbx::af::shared rstbx::diffraction::fastbragg::camera::get_wavelengths() const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h:133:32: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] 133 | SCITBX_ASSERT(result.size()==dispsteps); | ~~~~~~~~~~~~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h:133:5: note: in expansion of macro ‘SCITBX_ASSERT’ 133 | SCITBX_ASSERT(result.size()==dispsteps); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h: In member function ‘std::map, double> rstbx::diffraction::fastbragg::crystal::get_amplitude_mapping() const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h:176:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 176 | for (int i = 0; i < miller.size(); ++i){ | ~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h: In member function ‘void rstbx::diffraction::fastbragg::fast_bragg_simulation::sweep_over_detector(const bool&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h:305:38: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 305 | for(int i_lambda=0; i_lambda < lambdas.size(); ++i_lambda){ | ~~~~~~~~~^~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/fastbragg/fastbragg_ext.cpp:10: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h: In member function ‘scitbx::af::versa > rstbx::diffraction::fastbragg::detector::intdata()’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h:89:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::versa_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 89 | for (int count = 0; count < raw.size(); ++count){ | ~~~~~~^~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/vec3.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h:8: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h: In member function ‘scitbx::af::shared rstbx::diffraction::fastbragg::camera::get_wavelengths() const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h:133:32: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] 133 | SCITBX_ASSERT(result.size()==dispsteps); | ~~~~~~~~~~~~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h:133:5: note: in expansion of macro ‘SCITBX_ASSERT’ 133 | SCITBX_ASSERT(result.size()==dispsteps); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h: In member function ‘std::map, double> rstbx::diffraction::fastbragg::crystal::get_amplitude_mapping() const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h:176:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 176 | for (int i = 0; i < miller.size(); ++i){ | ~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h: In member function ‘void rstbx::diffraction::fastbragg::fast_bragg_simulation::sweep_over_detector(const bool&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h:305:38: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 305 | for(int i_lambda=0; i_lambda < lambdas.size(); ++i_lambda){ | ~~~~~~~~~^~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h: In instantiation of ‘scitbx::af::shared rstbx::diffraction::fastbragg::fast_bragg_simulation::sweep_over_detector_get_indices(const bool&) [with IndexType = scitbx::vec3; MillerConversionPolicy = rstbx::diffraction::fastbragg::vec3_double_miller_index_policy]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/fastbragg/fastbragg_ext.cpp:134:11: required from here 127 | class_("fast_bragg_simulation",init<>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 128 | | 129 | .def("set_detector",&fast_bragg_simulation::set_detector) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 130 | .def("set_camera",&fast_bragg_simulation::set_camera) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 131 | .def("set_crystal",&fast_bragg_simulation::set_crystal) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 132 | .def("sweep_over_detector",&fast_bragg_simulation::sweep_over_detector, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | (arg_("verbose")=false)) | ~~~~~~~~~~~~~~~~~~~~~~~~ 134 | .def("sweep_over_detector_float_indices",&fast_bragg_simulation::sweep_over_detector_get_indices< | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 135 | rstbx::diffraction::fastbragg::vec3, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 136 | rstbx::diffraction::fastbragg::vec3_double_miller_index_policy>, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 137 | (arg_("verbose")=false)) | ~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h:456:38: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 456 | for(int i_lambda=0; i_lambda < lambdas.size(); ++i_lambda){ | ~~~~~~~~~^~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h: In instantiation of ‘scitbx::af::shared rstbx::diffraction::fastbragg::fast_bragg_simulation::sweep_over_detector_get_indices(const bool&) [with IndexType = cctbx::miller::index<>; MillerConversionPolicy = rstbx::diffraction::fastbragg::integer_miller_index_policy]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/fastbragg/fastbragg_ext.cpp:138:11: required from here 127 | class_("fast_bragg_simulation",init<>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 128 | | 129 | .def("set_detector",&fast_bragg_simulation::set_detector) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 130 | .def("set_camera",&fast_bragg_simulation::set_camera) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 131 | .def("set_crystal",&fast_bragg_simulation::set_crystal) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 132 | .def("sweep_over_detector",&fast_bragg_simulation::sweep_over_detector, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | (arg_("verbose")=false)) | ~~~~~~~~~~~~~~~~~~~~~~~~ 134 | .def("sweep_over_detector_float_indices",&fast_bragg_simulation::sweep_over_detector_get_indices< | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 135 | rstbx::diffraction::fastbragg::vec3, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 136 | rstbx::diffraction::fastbragg::vec3_double_miller_index_policy>, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 137 | (arg_("verbose")=false)) | ~~~~~~~~~~~~~~~~~~~~~~~~ 138 | .def("sweep_over_detector_integer_indices",&fast_bragg_simulation::sweep_over_detector_get_indices< | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 139 | rstbx::diffraction::fastbragg::miller_t, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 140 | rstbx::diffraction::fastbragg::integer_miller_index_policy>, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 141 | (arg_("verbose")=false)) | ~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h:456:38: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 456 | for(int i_lambda=0; i_lambda < lambdas.size(); ++i_lambda){ | ~~~~~~~~~^~~~~~~~~~~~~~~~ g++ -o rstbx/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -Irstbx/src -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/src -Irstbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/rstbx_bpcx_detector_model_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=rstbx_bpcx_detector_model_ext.so.0 rstbx/bpcx/detector_model/detector_model_ext.o rstbx/bpcx/detector_model/sensor.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lrstbx -lann-cctbx -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/rstbx_bpcx_detector_model_ext.so.0.0.1' 'lib/rstbx_bpcx_detector_model_ext.so.0'->'lib/rstbx_bpcx_detector_model_ext.so.0.0.1' 'lib/rstbx_bpcx_detector_model_ext.so'->'lib/rstbx_bpcx_detector_model_ext.so.0.0.1' g++ -o rstbx/indexing_api/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -Irstbx/indexing_api/src -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/indexing_api/src -Irstbx/indexing_api/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/indexing_api/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/indexing_api/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/rstbx_bandpass_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=rstbx_bandpass_ext.so.0 rstbx/bandpass/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lann-cctbx -lann_adaptor -lrstbx -lann-cctbx -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/rstbx_bandpass_ext.so.0.0.1' 'lib/rstbx_bandpass_ext.so.0'->'lib/rstbx_bandpass_ext.so.0.0.1' 'lib/rstbx_bandpass_ext.so'->'lib/rstbx_bandpass_ext.so.0.0.1' In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/fftpack/real_to_complex.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/dps_core/directional_fft.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/dps_core/dps_core.h:11, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/indexing_api/indexing_api.h:9, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/indexing_api/ext.cpp:4: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/fftpack/factorization.h: In constructor ‘scitbx::fftpack::factorization::factorization(std::size_t, bool)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/fftpack/factorization.h:64:32: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::tiny_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 64 | for (i = 0; red_n > 1 && i < opt_factors.size(); i++) { | ~~^~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/fftpack/factorization.h:67:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::tiny_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 67 | for (i = 0; i < opt_factors.size(); i++) { | ~~^~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/virtual_panel.h:28, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel_data.h:17, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:22, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/detector.h:25, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/indexing_api/indexing_api.h:11: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam()’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:551:18: warning: ‘scitbx::vec3 dxtbx::model::Beam::direction_’ [-Wreorder] 551 | vec3 direction_; | ^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:93:5: warning: when initialized here [-Wreorder] 93 | Beam() | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:126:5: warning: when initialized here [-Wreorder] 126 | Beam(vec3 direction, double wavelength) | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:165:5: warning: when initialized here [-Wreorder] 165 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:193:5: warning: when initialized here [-Wreorder] 193 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:562:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 562 | double wavelength_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:552:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 552 | double divergence_; | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:227:5: warning: when initialized here [-Wreorder] 227 | Beam(vec3 direction, | ^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h: In member function ‘virtual scitbx::af::shared > dxtbx::model::PolychromaticBeam::get_s0_at_scan_points() const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:760:52: warning: left operand of comma operator has no effect [-Wunused-value] 760 | return scitbx::af::shared >(1, (0., 0., 0.)); | ^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/beam.h:760:60: warning: right operand of comma operator has no effect [-Wunused-value] 760 | return scitbx::af::shared >(1, (0., 0., 0.)); | ^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:288:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 288 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:289:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 289 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:328:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 328 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:329:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 329 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:408:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 408 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:409:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 409 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:449:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 449 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:450:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 450 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; g++ -o rstbx/apps/integration_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -Irstbx/apps/src -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/apps/src -Irstbx/apps/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/apps/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/apps/integration_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h: In member function ‘void dxtbx::model::Panel::apply_untrusted_rectangle_mask(scitbx::af::ref >) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:435:36: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 435 | for (std::size_t y = y0; y < y1; ++y) { | ~~^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src/dxtbx/model/panel.h:436:38: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 436 | for (std::size_t x = x0; x < x1; ++x) { | ~~^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/indexing_api/ext.cpp: In member function ‘void indexing_api::rayleigh_cpp::estimate_parameters_from_cdf(scitbx::af::shared, scitbx::af::shared)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/indexing_api/ext.cpp:59:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 59 | for (int i=0; i < x_data.size(); ++i){ | ~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/indexing_api/ext.cpp: In member function ‘scitbx::af::shared indexing_api::rayleigh_cpp::pdf(scitbx::af::shared)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/indexing_api/ext.cpp:80:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 80 | for (int i = 0; i < x.size(); ++i){ | ~~^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/indexing_api/ext.cpp: In member function ‘scitbx::af::shared indexing_api::rayleigh_cpp::cdf(scitbx::af::shared)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/indexing_api/ext.cpp:96:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 96 | for (int i = 0; i < x.size(); ++i){ | ~~^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/indexing_api/ext.cpp: In member function ‘scitbx::af::shared indexing_api::rayleigh_cpp::d_cdf_d_sigma(scitbx::af::shared)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/indexing_api/ext.cpp:113:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 113 | for (int i = 0; i < x.size(); ++i){ | ~~^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/indexing_api/ext.cpp: In member function ‘scitbx::af::shared indexing_api::rayleigh_cpp::gradients(scitbx::af::shared, const int&, scitbx::af::shared)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/indexing_api/ext.cpp:129:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 129 | for (int i = 0; i < x.size(); ++i){ | ~~^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/indexing_api/ext.cpp:135:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 135 | for (int i = 0; i < gradients.size(); ++i){ | ~~^~~~~~~~~~~~~~~~~~ g++ -o lib/mmtbx_tls_utils_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_tls_utils_ext.so.0 mmtbx/tls/utils.o mmtbx/tls/utils_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lmmtbx_tls -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm g++ -o lib/rstbx_diffraction_fastbragg_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=rstbx_diffraction_fastbragg_ext.so.0 rstbx/diffraction/fastbragg/fastbragg_ext.o rstbx/diffraction/fastbragg/fastbragg.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lrstbx -lann-cctbx -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/rstbx_diffraction_fastbragg_ext.so.0.0.1' 'lib/rstbx_diffraction_fastbragg_ext.so.0'->'lib/rstbx_diffraction_fastbragg_ext.so.0.0.1' 'lib/rstbx_diffraction_fastbragg_ext.so'->'lib/rstbx_diffraction_fastbragg_ext.so.0.0.1' g++ -o rstbx/simage/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -Irstbx/simage/src -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/simage/src -Irstbx/simage/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/simage/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/simage/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ Create symlinks for: 'lib/mmtbx_tls_utils_ext.so.0.0.1' 'lib/mmtbx_tls_utils_ext.so.0'->'lib/mmtbx_tls_utils_ext.so.0.0.1' 'lib/mmtbx_tls_utils_ext.so'->'lib/mmtbx_tls_utils_ext.so.0.0.1' g++ -o rstbx/simulation/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -Irstbx/simulation/src -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/simulation/src -Irstbx/simulation/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/simulation/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/simulation/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/core_toolbox/libdistl.h:81, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/core_toolbox/distl.h:14, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/apps/stills/simple_integration.h:9, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/apps/integration_ext.cpp:3: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/detectors/scanbox.h: In member function ‘Distl::interval_list Distl::scanbox_tiling_explicit::generate_defined_x_tiles(const int&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/iotbx/detectors/scanbox.h:268:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 268 | for (int tile = 0 ; tile < tile_count; ++tile){ | ~~~~~^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/apps/stills/simple_integration.h: In member function ‘void rstbx::integration::simple_integration::append_ISmask(scitbx::af::shared)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/apps/stills/simple_integration.h:222:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 222 | for (int i=0; i < mask.size(); i+=2){ | ~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/apps/stills/simple_integration.h: In member function ‘void rstbx::integration::simple_integration::positional_correction_mapping(scitbx::af::shared >, scitbx::af::shared >, const annlib_adaptbx::AnnAdaptor&, const annlib_adaptbx::AnnAdaptor&, scitbx::af::shared)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/apps/stills/simple_integration.h:273:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 273 | for (int i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 287 | for (int p=0; p >, scitbx::af::shared >, const annlib_adaptbx::AnnAdaptor&, scitbx::af::shared)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/apps/stills/simple_integration.h:310:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 310 | for (int i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 320 | for (int p=0; p > rstbx::integration::simple_integration::safe_background(const scitbx::af::flex_int&, scitbx::af::shared >, const annlib_adaptbx::AnnAdaptor&, scitbx::af::shared)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/apps/stills/simple_integration.h:366:30: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 366 | for (int isort=0; isort >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 378 | for (int isort=0; isort >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 395 | for (int i=0; i >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 495 | for (int isort=0; isort >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 550 | for (int i=0; i >, scitbx::af::shared >, scitbx::af::shared >)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/apps/stills/simple_integration.h:575:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 575 | for (int i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 631 | for (int k=0; k::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 638 | for (int k=0; k >&, const scitbx::af::const_ref&, const scitbx::mat3&, double, double, int, double, scitbx::vec2, scitbx::vec2, unsigned int, double)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/simage/image_simple.hpp:144:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 144 | for(int i=0;i<=point_spread;i++) { | ~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/simage/image_simple.hpp:148:28: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 148 | for(int j=0;j<=point_spread;j++) { | ~^~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/simage/image_simple.hpp:10: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/simage/ext.cpp: In function ‘std::string rstbx::simage::ext::combine_rgb_images(const boost::python::list&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/simage/ext.cpp:58:42: warning: comparison of integer expressions of different signedness: ‘boost::python::ssize_t’ {aka ‘long int’} and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 58 | TBXX_ASSERT(bp::len(rgb_images[j]) == img_size); | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/tbxx/error_utils.hpp:59:9: note: in definition of macro ‘TBXX_ASSERT’ 59 | if (!(condition)) { \ | ^~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/simulation/ext.cpp:11: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/simulation/sim_xfel1.h: In member function ‘scitbx::af::shared rstbx::xfel1::select_proximal_indices(const int&, const double&, const double&, const cctbx::crystal_orientation&, const double&, const double&, const double&, const double&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/simulation/sim_xfel1.h:113:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 113 | for (int x = 0; x < indices_all.size(); ++x){ | ~~^~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/simulation/sim_xfel1.h: In member function ‘scitbx::af::versa > rstbx::xfel1::raw_diffraction(scitbx::af::shared, scitbx::af::versa >, const size_t&, const double&, const double&, const double&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/simulation/sim_xfel1.h:178:30: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] 178 | for (int mcount=0; mcount::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 230 | for (int isel = 0; isel < selected.size(); ++isel){ | ~~~~~^~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/simulation/sim_xfel1.h:231:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 231 | for (int imos = 0; imos < mosaic_perturbations.size(); ++imos){ | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -o lib/rstbx_indexing_api_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=rstbx_indexing_api_ext.so.0 rstbx/indexing_api/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lrstbx -lann-cctbx -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/rstbx_indexing_api_ext.so.0.0.1' 'lib/rstbx_indexing_api_ext.so.0'->'lib/rstbx_indexing_api_ext.so.0.0.1' 'lib/rstbx_indexing_api_ext.so'->'lib/rstbx_indexing_api_ext.so.0.0.1' g++ -o rstbx/symmetry/constraints/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -Irstbx/symmetry/constraints/src -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/symmetry/constraints/src -Irstbx/symmetry/constraints/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/symmetry/constraints/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/symmetry/constraints/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:307, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa_plain.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/flex_types.h:7, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/rstbx/simulation/sim_xfel1.h:4: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/detail/push_back_etc.h: In member function ‘void scitbx::af::shared_plain::resize(const size_type&) [with ElementType = scitbx::vec3]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/detail/push_back_etc.h:175:15: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] 175 | resize(new_size, ElementType()); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/detail/push_back_etc.h:165:12: note: by argument 3 of type ‘const scitbx::vec3&’ to ‘void scitbx::af::shared_plain::resize(const size_type&, const ElementType&) [with ElementType = scitbx::vec3]’ declared here 165 | void resize(size_type const& new_size, ElementType const& x) { | ^~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/detail/push_back_etc.h:175:26: note: ‘’ declared here 175 | resize(new_size, ElementType()); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/detail/push_back_etc.h: In member function ‘void scitbx::af::shared_plain::resize(const size_type&) [with ElementType = cctbx::crystal_orientation]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/detail/push_back_etc.h:175:15: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] 175 | resize(new_size, ElementType()); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/detail/push_back_etc.h:165:12: note: by argument 3 of type ‘const cctbx::crystal_orientation&’ to ‘void scitbx::af::shared_plain::resize(const size_type&, const ElementType&) [with ElementType = cctbx::crystal_orientation]’ declared here 165 | void resize(size_type const& new_size, ElementType const& x) { | ^~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/detail/push_back_etc.h:175:26: note: ‘’ declared here 175 | resize(new_size, ElementType()); | ^~~~~~~~~~~~~ g++ -o lib/rstbx_integration_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=rstbx_integration_ext.so.0 rstbx/apps/integration_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lann-cctbx -lann_adaptor -lspotfinder -lrstbx -lann-cctbx -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm g++ -o lib/rstbx_simulation_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=rstbx_simulation_ext.so.0 rstbx/simulation/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lrstbx -lann-cctbx -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/rstbx_integration_ext.so.0.0.1' 'lib/rstbx_integration_ext.so.0'->'lib/rstbx_integration_ext.so.0.0.1' 'lib/rstbx_integration_ext.so'->'lib/rstbx_integration_ext.so.0.0.1' g++ -o lib/rstbx_simage_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=rstbx_simage_ext.so.0 rstbx/simage/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lrstbx -lann-cctbx -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm g++ -o scitbx/array_family/boost_python/flex_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ Create symlinks for: 'lib/rstbx_simulation_ext.so.0.0.1' 'lib/rstbx_simulation_ext.so.0'->'lib/rstbx_simulation_ext.so.0.0.1' 'lib/rstbx_simulation_ext.so'->'lib/rstbx_simulation_ext.so.0.0.1' g++ -o scitbx/array_family/boost_python/flex_grid.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_grid.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ Create symlinks for: 'lib/rstbx_simage_ext.so.0.0.1' 'lib/rstbx_simage_ext.so.0'->'lib/rstbx_simage_ext.so.0.0.1' 'lib/rstbx_simage_ext.so'->'lib/rstbx_simage_ext.so.0.0.1' g++ -o scitbx/array_family/boost_python/flex_bool.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_bool.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/rstbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=rstbx_ext.so.0 rstbx/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lrstbx -lann-cctbx -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm g++ -o lib/rstbx_array_family_flex_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=rstbx_array_family_flex_ext.so.0 rstbx/array_family/ext.o rstbx/array_family/flex_rstbx_arrays.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lrstbx -lann-cctbx -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/rstbx_ext.so.0.0.1' 'lib/rstbx_ext.so.0'->'lib/rstbx_ext.so.0.0.1' 'lib/rstbx_ext.so'->'lib/rstbx_ext.so.0.0.1' g++ -o scitbx/array_family/boost_python/flex_size_t.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/rstbx_symmetry_constraints_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=rstbx_symmetry_constraints_ext.so.0 rstbx/symmetry/constraints/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lrstbx -lann-cctbx -lcctbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/rstbx_array_family_flex_ext.so.0.0.1' 'lib/rstbx_array_family_flex_ext.so.0'->'lib/rstbx_array_family_flex_ext.so.0.0.1' 'lib/rstbx_array_family_flex_ext.so'->'lib/rstbx_array_family_flex_ext.so.0.0.1' /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp: In member function ‘const char* scitbx::af::boost_python::cost_of_m_handle_in_af_shared::operator()(unsigned int, unsigned int)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:367:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 367 | for(int n=0; n < n_repeats; ++n) { | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:375:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 375 | for(int n=0; n < n_repeats; ++n) { | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:383:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 383 | for(int n=0; n < n_repeats; ++n) { | ~~^~~~~~~~~~~ g++ -o scitbx/array_family/boost_python/flex_int.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_int.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:31, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/selections.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:2: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/selections.h: In instantiation of ‘scitbx::af::shared scitbx::af::reindexing_array(std::size_t, const const_ref&) [with IntType = int; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:544:7: required from here 544 | reindexing_array, | ^~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/selections.h:156:35: warning: comparison of integer expressions of different signedness: ‘const int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 156 | SCITBX_ASSERT(iselection[i] < selectee_size); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/selections.h:156:7: note: in expansion of macro ‘SCITBX_ASSERT’ 156 | SCITBX_ASSERT(iselection[i] < selectee_size); | ^~~~~~~~~~~~~ Create symlinks for: 'lib/rstbx_symmetry_constraints_ext.so.0.0.1' 'lib/rstbx_symmetry_constraints_ext.so.0'->'lib/rstbx_symmetry_constraints_ext.so.0.0.1' 'lib/rstbx_symmetry_constraints_ext.so'->'lib/rstbx_symmetry_constraints_ext.so.0.0.1' g++ -o scitbx/array_family/boost_python/flex_float.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_float.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /usr/include/boost/assert.hpp:64, from /usr/include/boost/smart_ptr/shared_ptr.hpp:23, from /usr/include/boost/shared_ptr.hpp:17, from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, from /usr/include/boost/python/converter/arg_to_python.hpp:15, from /usr/include/boost/python/call.hpp:15, from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object.hpp:9, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/c_grid_flex_conversions.h:10, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:10: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::af::tiny]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:84:46: required from here 84 | tuple_mapping_fixed_size >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::af::tiny]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:85:45: required from here 85 | tuple_mapping_fixed_size >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::af::tiny]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:86:36: required from here 86 | tuple_mapping_fixed_size(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::af::tiny]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:87:36: required from here 87 | tuple_mapping_fixed_size(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::af::tiny]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:88:36: required from here 88 | tuple_mapping_fixed_size(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::af::tiny]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:89:36: required from here 89 | tuple_mapping_fixed_size(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::af::tiny]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:90:37: required from here 90 | tuple_mapping_fixed_size(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::af::tiny]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:91:39: required from here 91 | tuple_mapping_fixed_size(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::af::tiny]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:92:39: required from here 92 | tuple_mapping_fixed_size(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::af::tiny]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:93:39: required from here 93 | tuple_mapping_fixed_size(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::af::tiny]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:94:39: required from here 94 | tuple_mapping_fixed_size(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::af::tiny]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:95:39: required from here 95 | tuple_mapping_fixed_size(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::tiny, 2>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::tiny, 2>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::tiny, 2>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::af::tiny, 2>]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:96:53: required from here 96 | tuple_mapping_fixed_size >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::tiny, 3>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::tiny, 3>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::tiny, 3>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::af::tiny, 3>]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:97:53: required from here 97 | tuple_mapping_fixed_size >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::tiny, 4>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::tiny, 4>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::tiny, 4>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::af::tiny, 4>]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:98:53: required from here 98 | tuple_mapping_fixed_size >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:290:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_capacity::tuple_mapping_fixed_capacity() [with ContainerType = scitbx::af::small]’ 290 | tuple_mapping< | ^~~~~~~~~~~~~~ 291 | ContainerType, | ~~~~~~~~~~~~~~ 292 | fixed_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:100:50: required from here 100 | tuple_mapping_fixed_capacity >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:290:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_capacity::tuple_mapping_fixed_capacity() [with ContainerType = scitbx::af::small]’ 290 | tuple_mapping< | ^~~~~~~~~~~~~~ 291 | ContainerType, | ~~~~~~~~~~~~~~ 292 | fixed_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:101:51: required from here 101 | tuple_mapping_fixed_capacity >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:290:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_capacity::tuple_mapping_fixed_capacity() [with ContainerType = scitbx::af::small]’ 290 | tuple_mapping< | ^~~~~~~~~~~~~~ 291 | ContainerType, | ~~~~~~~~~~~~~~ 292 | fixed_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:102:55: required from here 102 | tuple_mapping_fixed_capacity >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:290:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_capacity::tuple_mapping_fixed_capacity() [with ContainerType = scitbx::af::small]’ 290 | tuple_mapping< | ^~~~~~~~~~~~~~ 291 | ContainerType, | ~~~~~~~~~~~~~~ 292 | fixed_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:103:55: required from here 103 | tuple_mapping_fixed_capacity >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:290:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_capacity::tuple_mapping_fixed_capacity() [with ContainerType = scitbx::af::small]’ 290 | tuple_mapping< | ^~~~~~~~~~~~~~ 291 | ContainerType, | ~~~~~~~~~~~~~~ 292 | fixed_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:104:55: required from here 104 | tuple_mapping_fixed_capacity >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:290:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_capacity::tuple_mapping_fixed_capacity() [with ContainerType = scitbx::af::small]’ 290 | tuple_mapping< | ^~~~~~~~~~~~~~ 291 | ContainerType, | ~~~~~~~~~~~~~~ 292 | fixed_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:105:58: required from here 105 | tuple_mapping_fixed_capacity >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:290:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_capacity::tuple_mapping_fixed_capacity() [with ContainerType = scitbx::af::small]’ 290 | tuple_mapping< | ^~~~~~~~~~~~~~ 291 | ContainerType, | ~~~~~~~~~~~~~~ 292 | fixed_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:106:53: required from here 106 | tuple_mapping_fixed_capacity >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:290:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_capacity::tuple_mapping_fixed_capacity() [with ContainerType = scitbx::af::small]’ 290 | tuple_mapping< | ^~~~~~~~~~~~~~ 291 | ContainerType, | ~~~~~~~~~~~~~~ 292 | fixed_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:107:53: required from here 107 | tuple_mapping_fixed_capacity >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:290:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_capacity::tuple_mapping_fixed_capacity() [with ContainerType = scitbx::af::small]’ 290 | tuple_mapping< | ^~~~~~~~~~~~~~ 291 | ContainerType, | ~~~~~~~~~~~~~~ 292 | fixed_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:108:53: required from here 108 | tuple_mapping_fixed_capacity >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:290:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_capacity::tuple_mapping_fixed_capacity() [with ContainerType = scitbx::af::small]’ 290 | tuple_mapping< | ^~~~~~~~~~~~~~ 291 | ContainerType, | ~~~~~~~~~~~~~~ 292 | fixed_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:110:54: required from here 110 | tuple_mapping_fixed_capacity >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::af::tiny]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:112:46: required from here 112 | tuple_mapping_fixed_size >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::af::tiny]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:113:46: required from here 113 | tuple_mapping_fixed_size >(); // scitbx/math/golay.h | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::af::tiny]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:115:49: required from here 115 | tuple_mapping_fixed_size >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::af::tiny]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:117:50: required from here 117 | tuple_mapping_fixed_size >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::af::tiny]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:118:50: required from here 118 | tuple_mapping_fixed_size >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::af::tiny]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:119:50: required from here 119 | tuple_mapping_fixed_size >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::af::tiny]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:120:50: required from here 120 | tuple_mapping_fixed_size >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::af::tiny]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:122:53: required from here 122 | tuple_mapping_fixed_size >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::af::tiny]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:123:53: required from here 123 | tuple_mapping_fixed_size >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::tiny; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::af::tiny]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:124:53: required from here 124 | tuple_mapping_fixed_size >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::vec3; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::vec3; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::vec3; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::vec3]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:127:51: required from here 127 | tuple_mapping_fixed_size >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::vec3; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::vec3; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::vec3; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::vec3]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:128:52: required from here 128 | tuple_mapping_fixed_size >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::vec3; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::vec3; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::vec3; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::vec3]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:129:42: required from here 129 | tuple_mapping_fixed_size >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::mat3; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::mat3; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::mat3; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::mat3]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:130:42: required from here 130 | tuple_mapping_fixed_size >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::vec3; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::vec3; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::vec3; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::vec3]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:131:45: required from here 131 | tuple_mapping_fixed_size >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::vec3 >; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::vec3 >; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::vec3 >; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::vec3 >]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:132:63: required from here 132 | tuple_mapping_fixed_size > >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::mat3; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::mat3; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::mat3; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::mat3]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:133:45: required from here 133 | tuple_mapping_fixed_size >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::sym_mat3; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::sym_mat3; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::sym_mat3; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::sym_mat3]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:134:49: required from here 134 | tuple_mapping_fixed_size >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::vec2; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::vec2; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::vec2; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::vec2]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:135:51: required from here 135 | tuple_mapping_fixed_size >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::vec2; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::vec2; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::vec2; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::vec2]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:136:52: required from here 136 | tuple_mapping_fixed_size >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::vec2; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::vec2; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::vec2; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::vec2]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:137:42: required from here 137 | tuple_mapping_fixed_size >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::mat2; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::mat2; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::mat2; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::mat2]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:138:42: required from here 138 | tuple_mapping_fixed_size >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::vec2; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::vec2; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::vec2; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::vec2]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:139:45: required from here 139 | tuple_mapping_fixed_size >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::mat2; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::mat2; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::mat2; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::mat2]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:140:45: required from here 140 | tuple_mapping_fixed_size >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::sym_mat2; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::sym_mat2; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::sym_mat2; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::sym_mat2]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:141:49: required from here 141 | tuple_mapping_fixed_size >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::vec3 >; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::vec3 >; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::vec3 >; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::vec3 >]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:143:60: required from here 143 | tuple_mapping_fixed_size > >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::mat3 >; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::mat3 >; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::mat3 >; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::mat3 >]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:144:60: required from here 144 | tuple_mapping_fixed_size > >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::tiny, 2>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::tiny, 2>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::tiny, 2>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::af::tiny, 2>]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:146:54: required from here 146 | tuple_mapping_fixed_size, 2> >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::tiny, 3>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::tiny, 3>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::tiny, 3>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::af::tiny, 3>]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:147:54: required from here 147 | tuple_mapping_fixed_size, 3> >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::tiny, 4>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::tiny, 4>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::tiny, 4>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::af::tiny, 4>]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:148:54: required from here 148 | tuple_mapping_fixed_size, 4> >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::tiny, 2>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::tiny, 2>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::tiny, 2>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::af::tiny, 2>]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:149:54: required from here 149 | tuple_mapping_fixed_size, 2> >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::tiny, 3>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::tiny, 3>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::tiny, 3>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::af::tiny, 3>]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:150:54: required from here 150 | tuple_mapping_fixed_size, 3> >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::tiny, 4>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::tiny, 4>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::tiny, 4>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:280:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_size::tuple_mapping_fixed_size() [with ContainerType = scitbx::af::tiny, 4>]’ 280 | tuple_mapping< | ^~~~~~~~~~~~~~ 281 | ContainerType, | ~~~~~~~~~~~~~~ 282 | fixed_size_policy>(); | ~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:151:54: required from here 151 | tuple_mapping_fixed_size, 4> >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:290:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_capacity::tuple_mapping_fixed_capacity() [with ContainerType = scitbx::af::small]’ 290 | tuple_mapping< | ^~~~~~~~~~~~~~ 291 | ContainerType, | ~~~~~~~~~~~~~~ 292 | fixed_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:153:64: required from here 153 | tuple_mapping_fixed_capacity(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::small, 3>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::small, 3>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::small, 3>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:290:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_capacity::tuple_mapping_fixed_capacity() [with ContainerType = scitbx::af::small, 3>]’ 290 | tuple_mapping< | ^~~~~~~~~~~~~~ 291 | ContainerType, | ~~~~~~~~~~~~~~ 292 | fixed_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:154:56: required from here 154 | tuple_mapping_fixed_capacity, 3> >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::small, 2>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::small, 2>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::small, 2>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:290:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_capacity::tuple_mapping_fixed_capacity() [with ContainerType = scitbx::af::small, 2>]’ 290 | tuple_mapping< | ^~~~~~~~~~~~~~ 291 | ContainerType, | ~~~~~~~~~~~~~~ 292 | fixed_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:155:56: required from here 155 | tuple_mapping_fixed_capacity, 2> >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::small, 6>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::small, 6>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::small, 6>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:290:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_capacity::tuple_mapping_fixed_capacity() [with ContainerType = scitbx::af::small, 6>]’ 290 | tuple_mapping< | ^~~~~~~~~~~~~~ 291 | ContainerType, | ~~~~~~~~~~~~~~ 292 | fixed_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:156:59: required from here 156 | tuple_mapping_fixed_capacity, 6> >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::small, 7>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::small, 7>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::small, 7>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:290:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_capacity::tuple_mapping_fixed_capacity() [with ContainerType = scitbx::af::small, 7>]’ 290 | tuple_mapping< | ^~~~~~~~~~~~~~ 291 | ContainerType, | ~~~~~~~~~~~~~~ 292 | fixed_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:157:59: required from here 157 | tuple_mapping_fixed_capacity, 7> >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::small, 8>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::small, 8>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::small, 8>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:290:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_capacity::tuple_mapping_fixed_capacity() [with ContainerType = scitbx::af::small, 8>]’ 290 | tuple_mapping< | ^~~~~~~~~~~~~~ 291 | ContainerType, | ~~~~~~~~~~~~~~ 292 | fixed_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:158:59: required from here 158 | tuple_mapping_fixed_capacity, 8> >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::small, 8>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::small, 8>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:270:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping::tuple_mapping() [with ContainerType = scitbx::af::small, 8>; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ 270 | from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 271 | ContainerType, | ~~~~~~~~~~~~~~ 272 | ConversionPolicy>(); | ~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:290:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_capacity::tuple_mapping_fixed_capacity() [with ContainerType = scitbx::af::small, 8>]’ 290 | tuple_mapping< | ^~~~~~~~~~~~~~ 291 | ContainerType, | ~~~~~~~~~~~~~~ 292 | fixed_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:159:59: required from here 159 | tuple_mapping_fixed_capacity, 8> >(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/accessors/flex_grid.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/flex_types.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_bool.cpp:1: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h: In member function ‘void scitbx::af::boost_python::detail::getstate_manager::advance(char*)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:43: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:9: note: in expansion of macro ‘SCITBX_ASSERT’ 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::first_index_a_s(const f_t&, e_t) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = bool]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_bool.cpp:429:8: required from here 429 | def("first_index", f_w::first_index_a_s, (arg("value"))); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:616:41: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = bool]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] 616 | return first_index(a, std::bind2nd(std::equal_to(), x)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/15/bits/stl_function.h:1480, from /usr/include/c++/15/string:51, from /usr/include/boost/core/demangle.hpp:14, from /usr/include/boost/core/typeinfo.hpp:135, from /usr/include/boost/function/function_base.hpp:16, from /usr/include/boost/function/function_template.hpp:14, from /usr/include/boost/function/function0.hpp:10, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/to_python_value.hpp:14, from /usr/include/boost/python/default_call_policies.hpp:10, from /usr/include/boost/python/make_function.hpp:10, from /usr/include/boost/python/def.hpp:11, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:6: /usr/include/c++/15/backward/binders.h:172:5: note: declared here 172 | bind2nd(const _Operation& __fn, const _Tp& __x) | ^~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::last_index_a_s(const f_t&, e_t) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = bool]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_bool.cpp:430:8: required from here 430 | def("last_index", f_w::last_index_a_s, (arg("value"))); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:621:40: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = bool]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] 621 | return last_index(a, std::bind2nd(std::equal_to(), x)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/15/backward/binders.h:172:5: note: declared here 172 | bind2nd(const _Operation& __fn, const _Tp& __x) | ^~~~~~~ In file included from /usr/include/boost/assert.hpp:64, from /usr/include/boost/optional/optional.hpp:25, from /usr/include/boost/optional.hpp:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref_reductions.h:8, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small_plain.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/accessors/flex_grid.h:5: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 769 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 770 | shared_plain, | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 771 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 772 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_bool.cpp:367:15: required from here 367 | f_w::plain("bool") | ~~~~~~~~~~^~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 773 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 774 | shared, | ~~~~~~~~~~~~~~~~~~~~ 775 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 776 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_bool.cpp:367:15: required from here 367 | f_w::plain("bool") | ~~~~~~~~~~^~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:18: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = bool]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 202 | return copy_slice(self, slices_simple); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 228 | return boost::python::object(getitem_nd_slice(a.const_ref(), slices)); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_bool.cpp:367:15: required from here 367 | f_w::plain("bool") | ~~~~~~~~~~^~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 89 | for (int i=0;i >&, small, const const_ref >&) [with T = bool]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_bool.cpp:367:15: required from here 367 | f_w::plain("bool") | ~~~~~~~~~~^~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 114 | for (int i=0;i >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = bool]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = bool]’ 119 | detail::copy_to_slice_detail(self, slices, other); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_bool.cpp:367:15: required from here 367 | f_w::plain("bool") | ~~~~~~~~~~^~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 70 | if (idx_a[j] < slices[j].stop) break; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/byte_str.h: In instantiation of ‘scitbx::af::shared scitbx::af::boost_python::shared_from_byte_str(const boost::python::api::object&) [with ElementType = int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:319:3: required from here 311 | def( \ | ~~~^~~ 312 | #pyname"_from_byte_str", \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 313 | shared_from_byte_str, \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 314 | (arg("byte_str"))); \ | ~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/byte_str.h:81:59: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/byte_str.h:81:5: note: in expansion of macro ‘SCITBX_ASSERT’ 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/byte_str.h: In instantiation of ‘scitbx::af::shared scitbx::af::boost_python::shared_from_byte_str(const boost::python::api::object&) [with ElementType = long int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:320:3: required from here 311 | def( \ | ~~~^~~ 312 | #pyname"_from_byte_str", \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 313 | shared_from_byte_str, \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 314 | (arg("byte_str"))); \ | ~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/byte_str.h:81:59: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/byte_str.h:81:5: note: in expansion of macro ‘SCITBX_ASSERT’ 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/byte_str.h: In instantiation of ‘scitbx::af::shared scitbx::af::boost_python::shared_from_byte_str(const boost::python::api::object&) [with ElementType = signed char]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:321:3: required from here 311 | def( \ | ~~~^~~ 312 | #pyname"_from_byte_str", \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 313 | shared_from_byte_str, \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 314 | (arg("byte_str"))); \ | ~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/byte_str.h:81:59: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/byte_str.h:81:5: note: in expansion of macro ‘SCITBX_ASSERT’ 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/byte_str.h: In instantiation of ‘scitbx::af::shared scitbx::af::boost_python::shared_from_byte_str(const boost::python::api::object&) [with ElementType = short int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:322:3: required from here 311 | def( \ | ~~~^~~ 312 | #pyname"_from_byte_str", \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 313 | shared_from_byte_str, \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 314 | (arg("byte_str"))); \ | ~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/byte_str.h:81:59: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/byte_str.h:81:5: note: in expansion of macro ‘SCITBX_ASSERT’ 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); | ^~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/accessors/flex_grid.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/flex_types.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_float.cpp:1: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h: In member function ‘void scitbx::af::boost_python::detail::getstate_manager::advance(char*)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:43: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:9: note: in expansion of macro ‘SCITBX_ASSERT’ 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); | ^~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/accessors/flex_grid.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/flex_types.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:1: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h: In member function ‘void scitbx::af::boost_python::detail::getstate_manager::advance(char*)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:43: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:9: note: in expansion of macro ‘SCITBX_ASSERT’ 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::first_index_a_s(const f_t&, e_t) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:963:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 963 | def("first_index", first_index_a_s); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1048 | return integer(python_name, flex_root_scope); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:319:3: required from here 242 | flex_wrapper::signed_integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:616:41: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = int]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] 616 | return first_index(a, std::bind2nd(std::equal_to(), x)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/15/bits/stl_function.h:1480, from /usr/include/c++/15/string:51, from /usr/include/boost/core/demangle.hpp:14, from /usr/include/boost/core/typeinfo.hpp:135, from /usr/include/boost/function/function_base.hpp:16, from /usr/include/boost/function/function_template.hpp:14, from /usr/include/boost/function/function0.hpp:10, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/to_python_value.hpp:14, from /usr/include/boost/python/default_call_policies.hpp:10, from /usr/include/boost/python/make_function.hpp:10, from /usr/include/boost/python/def.hpp:11, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:6: /usr/include/c++/15/backward/binders.h:172:5: note: declared here 172 | bind2nd(const _Operation& __fn, const _Tp& __x) | ^~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::last_index_a_s(const f_t&, e_t) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:964:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 964 | def("last_index", last_index_a_s); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1048 | return integer(python_name, flex_root_scope); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:319:3: required from here 242 | flex_wrapper::signed_integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:621:40: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = int]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] 621 | return last_index(a, std::bind2nd(std::equal_to(), x)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/15/backward/binders.h:172:5: note: declared here 172 | bind2nd(const _Operation& __fn, const _Tp& __x) | ^~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::first_index_a_s(const f_t&, e_t) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = float]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:963:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 963 | def("first_index", first_index_a_s); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1020 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_float.cpp:12:33: required from here 12 | flex_wrapper::numeric("float", boost::python::scope()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:616:41: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = float]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] 616 | return first_index(a, std::bind2nd(std::equal_to(), x)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/15/bits/stl_function.h:1480, from /usr/include/c++/15/string:51, from /usr/include/boost/core/demangle.hpp:14, from /usr/include/boost/core/typeinfo.hpp:135, from /usr/include/boost/function/function_base.hpp:16, from /usr/include/boost/function/function_template.hpp:14, from /usr/include/boost/function/function0.hpp:10, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/to_python_value.hpp:14, from /usr/include/boost/python/default_call_policies.hpp:10, from /usr/include/boost/python/make_function.hpp:10, from /usr/include/boost/python/def.hpp:11, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:6: /usr/include/c++/15/backward/binders.h:172:5: note: declared here 172 | bind2nd(const _Operation& __fn, const _Tp& __x) | ^~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::last_index_a_s(const f_t&, e_t) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = float]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:964:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 964 | def("last_index", last_index_a_s); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1020 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_float.cpp:12:33: required from here 12 | flex_wrapper::numeric("float", boost::python::scope()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:621:40: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = float]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] 621 | return last_index(a, std::bind2nd(std::equal_to(), x)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/15/backward/binders.h:172:5: note: declared here 172 | bind2nd(const _Operation& __fn, const _Tp& __x) | ^~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/byte_str.h: In instantiation of ‘scitbx::af::shared scitbx::af::boost_python::shared_from_byte_str(const boost::python::api::object&) [with ElementType = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:140:3: required from here 131 | def( \ | ~~~^~~ 132 | #pyname"_from_byte_str", \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | shared_from_byte_str, \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 134 | (arg("byte_str"))); \ | ~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/byte_str.h:81:59: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/byte_str.h:81:5: note: in expansion of macro ‘SCITBX_ASSERT’ 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/byte_str.h: In instantiation of ‘scitbx::af::shared scitbx::af::boost_python::shared_from_byte_str(const boost::python::api::object&) [with ElementType = unsigned char]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:141:3: required from here 131 | def( \ | ~~~^~~ 132 | #pyname"_from_byte_str", \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | shared_from_byte_str, \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 134 | (arg("byte_str"))); \ | ~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/byte_str.h:81:59: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/byte_str.h:81:5: note: in expansion of macro ‘SCITBX_ASSERT’ 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/byte_str.h: In instantiation of ‘scitbx::af::shared scitbx::af::boost_python::shared_from_byte_str(const boost::python::api::object&) [with ElementType = short unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:142:3: required from here 131 | def( \ | ~~~^~~ 132 | #pyname"_from_byte_str", \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | shared_from_byte_str, \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 134 | (arg("byte_str"))); \ | ~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/byte_str.h:81:59: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/byte_str.h:81:5: note: in expansion of macro ‘SCITBX_ASSERT’ 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/byte_str.h: In instantiation of ‘scitbx::af::shared scitbx::af::boost_python::shared_from_byte_str(const boost::python::api::object&) [with ElementType = unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:143:3: required from here 131 | def( \ | ~~~^~~ 132 | #pyname"_from_byte_str", \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | shared_from_byte_str, \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 134 | (arg("byte_str"))); \ | ~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/byte_str.h:81:59: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/byte_str.h:81:5: note: in expansion of macro ‘SCITBX_ASSERT’ 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::first_index_a_s(const f_t&, e_t) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:963:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 963 | def("first_index", first_index_a_s); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:140:3: required from here 105 | flex_wrapper::integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:616:41: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = long unsigned int]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] 616 | return first_index(a, std::bind2nd(std::equal_to(), x)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/15/bits/stl_function.h:1480, from /usr/include/c++/15/string:51, from /usr/include/boost/core/demangle.hpp:14, from /usr/include/boost/core/typeinfo.hpp:135, from /usr/include/boost/function/function_base.hpp:16, from /usr/include/boost/function/function_template.hpp:14, from /usr/include/boost/function/function0.hpp:10, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/to_python_value.hpp:14, from /usr/include/boost/python/default_call_policies.hpp:10, from /usr/include/boost/python/make_function.hpp:10, from /usr/include/boost/python/def.hpp:11, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:6: /usr/include/c++/15/backward/binders.h:172:5: note: declared here 172 | bind2nd(const _Operation& __fn, const _Tp& __x) | ^~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::last_index_a_s(const f_t&, e_t) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:964:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 964 | def("last_index", last_index_a_s); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:140:3: required from here 105 | flex_wrapper::integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:621:40: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = long unsigned int]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] 621 | return last_index(a, std::bind2nd(std::equal_to(), x)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/15/backward/binders.h:172:5: note: declared here 172 | bind2nd(const _Operation& __fn, const _Tp& __x) | ^~~~~~~ In file included from /usr/include/boost/assert.hpp:64, from /usr/include/boost/optional/optional.hpp:25, from /usr/include/boost/optional.hpp:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref_reductions.h:8, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small_plain.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/accessors/flex_grid.h:5: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 769 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 770 | shared_plain, | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 771 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 772 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1020 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_float.cpp:12:33: required from here 12 | flex_wrapper::numeric("float", boost::python::scope()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 773 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 774 | shared, | ~~~~~~~~~~~~~~~~~~~~ 775 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 776 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1020 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_float.cpp:12:33: required from here 12 | flex_wrapper::numeric("float", boost::python::scope()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:18: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = float]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 202 | return copy_slice(self, slices_simple); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 228 | return boost::python::object(getitem_nd_slice(a.const_ref(), slices)); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1020 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_float.cpp:12:33: required from here 12 | flex_wrapper::numeric("float", boost::python::scope()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 89 | for (int i=0;i >&, small, const const_ref >&) [with T = float]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1020 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_float.cpp:12:33: required from here 12 | flex_wrapper::numeric("float", boost::python::scope()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 114 | for (int i=0;i >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = float]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = float]’ 119 | detail::copy_to_slice_detail(self, slices, other); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1020 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_float.cpp:12:33: required from here 12 | flex_wrapper::numeric("float", boost::python::scope()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 70 | if (idx_a[j] < slices[j].stop) break; In file included from /usr/include/boost/assert.hpp:64, from /usr/include/boost/optional/optional.hpp:25, from /usr/include/boost/optional.hpp:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref_reductions.h:8, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small_plain.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/accessors/flex_grid.h:5: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 769 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 770 | shared_plain, | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 771 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 772 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1048 | return integer(python_name, flex_root_scope); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:319:3: required from here 242 | flex_wrapper::signed_integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 773 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 774 | shared, | ~~~~~~~~~~~~~~~~~~~~ 775 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 776 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1048 | return integer(python_name, flex_root_scope); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:319:3: required from here 242 | flex_wrapper::signed_integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 769 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 770 | shared_plain, | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 771 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 772 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1048 | return integer(python_name, flex_root_scope); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:320:3: required from here 242 | flex_wrapper::signed_integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 773 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 774 | shared, | ~~~~~~~~~~~~~~~~~~~~ 775 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 776 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1048 | return integer(python_name, flex_root_scope); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:320:3: required from here 242 | flex_wrapper::signed_integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 769 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 770 | shared_plain, | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 771 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 772 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1048 | return integer(python_name, flex_root_scope); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:321:3: required from here 242 | flex_wrapper::signed_integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 773 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 774 | shared, | ~~~~~~~~~~~~~~~~~~~~ 775 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 776 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1048 | return integer(python_name, flex_root_scope); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:321:3: required from here 242 | flex_wrapper::signed_integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 769 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 770 | shared_plain, | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 771 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 772 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1048 | return integer(python_name, flex_root_scope); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:322:3: required from here 242 | flex_wrapper::signed_integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 773 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 774 | shared, | ~~~~~~~~~~~~~~~~~~~~ 775 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 776 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1048 | return integer(python_name, flex_root_scope); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:322:3: required from here 242 | flex_wrapper::signed_integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:18: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 202 | return copy_slice(self, slices_simple); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 228 | return boost::python::object(getitem_nd_slice(a.const_ref(), slices)); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1048 | return integer(python_name, flex_root_scope); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:319:3: required from here 242 | flex_wrapper::signed_integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 89 | for (int i=0;i >&, small, const const_ref >&) [with T = int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1048 | return integer(python_name, flex_root_scope); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:319:3: required from here 242 | flex_wrapper::signed_integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 114 | for (int i=0;i > scitbx::af::copy_slice(const const_ref >&, small) [with T = long int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 202 | return copy_slice(self, slices_simple); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 228 | return boost::python::object(getitem_nd_slice(a.const_ref(), slices)); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1048 | return integer(python_name, flex_root_scope); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:320:3: required from here 242 | flex_wrapper::signed_integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 89 | for (int i=0;i >&, small, const const_ref >&) [with T = long int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1048 | return integer(python_name, flex_root_scope); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:320:3: required from here 242 | flex_wrapper::signed_integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 114 | for (int i=0;i > scitbx::af::copy_slice(const const_ref >&, small) [with T = signed char]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 202 | return copy_slice(self, slices_simple); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 228 | return boost::python::object(getitem_nd_slice(a.const_ref(), slices)); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1048 | return integer(python_name, flex_root_scope); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:321:3: required from here 242 | flex_wrapper::signed_integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 89 | for (int i=0;i >&, small, const const_ref >&) [with T = signed char]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1048 | return integer(python_name, flex_root_scope); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:321:3: required from here 242 | flex_wrapper::signed_integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 114 | for (int i=0;i > scitbx::af::copy_slice(const const_ref >&, small) [with T = short int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 202 | return copy_slice(self, slices_simple); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 228 | return boost::python::object(getitem_nd_slice(a.const_ref(), slices)); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1048 | return integer(python_name, flex_root_scope); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:322:3: required from here 242 | flex_wrapper::signed_integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 89 | for (int i=0;i >&, small, const const_ref >&) [with T = short int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1048 | return integer(python_name, flex_root_scope); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:322:3: required from here 242 | flex_wrapper::signed_integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 114 | for (int i=0;i::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 769 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 770 | shared_plain, | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 771 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 772 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:140:3: required from here 105 | flex_wrapper::integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 773 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 774 | shared, | ~~~~~~~~~~~~~~~~~~~~ 775 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 776 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:140:3: required from here 105 | flex_wrapper::integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::detail::copy_to_slice_detail(scitbx::af::versa >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = int]’ 119 | detail::copy_to_slice_detail(self, slices, other); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1048 | return integer(python_name, flex_root_scope); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:319:3: required from here 242 | flex_wrapper::signed_integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 70 | if (idx_a[j] < slices[j].stop) break; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 769 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 770 | shared_plain, | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 771 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 772 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:141:3: required from here 105 | flex_wrapper::integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 773 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 774 | shared, | ~~~~~~~~~~~~~~~~~~~~ 775 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 776 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:141:3: required from here 105 | flex_wrapper::integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 769 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 770 | shared_plain, | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 771 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 772 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:142:3: required from here 105 | flex_wrapper::integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 773 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 774 | shared, | ~~~~~~~~~~~~~~~~~~~~ 775 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 776 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:142:3: required from here 105 | flex_wrapper::integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::detail::copy_to_slice_detail(scitbx::af::versa >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = long int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = long int]’ 119 | detail::copy_to_slice_detail(self, slices, other); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1048 | return integer(python_name, flex_root_scope); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:320:3: required from here 242 | flex_wrapper::signed_integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 70 | if (idx_a[j] < slices[j].stop) break; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 769 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 770 | shared_plain, | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 771 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 772 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:143:3: required from here 105 | flex_wrapper::integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 773 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 774 | shared, | ~~~~~~~~~~~~~~~~~~~~ 775 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 776 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:143:3: required from here 105 | flex_wrapper::integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::detail::copy_to_slice_detail(scitbx::af::versa >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = signed char]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = signed char]’ 119 | detail::copy_to_slice_detail(self, slices, other); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1048 | return integer(python_name, flex_root_scope); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:321:3: required from here 242 | flex_wrapper::signed_integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 70 | if (idx_a[j] < slices[j].stop) break; In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:18: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 202 | return copy_slice(self, slices_simple); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 228 | return boost::python::object(getitem_nd_slice(a.const_ref(), slices)); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:140:3: required from here 105 | flex_wrapper::integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 89 | for (int i=0;i >&, small, const const_ref >&) [with T = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:140:3: required from here 105 | flex_wrapper::integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 114 | for (int i=0;i >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = short int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = short int]’ 119 | detail::copy_to_slice_detail(self, slices, other); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1048 | return integer(python_name, flex_root_scope); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:322:3: required from here 242 | flex_wrapper::signed_integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 70 | if (idx_a[j] < slices[j].stop) break; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = unsigned char]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 202 | return copy_slice(self, slices_simple); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 228 | return boost::python::object(getitem_nd_slice(a.const_ref(), slices)); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:141:3: required from here 105 | flex_wrapper::integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 89 | for (int i=0;i >&, small, const const_ref >&) [with T = unsigned char]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:141:3: required from here 105 | flex_wrapper::integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 114 | for (int i=0;i > scitbx::af::copy_slice(const const_ref >&, small) [with T = short unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 202 | return copy_slice(self, slices_simple); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 228 | return boost::python::object(getitem_nd_slice(a.const_ref(), slices)); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:142:3: required from here 105 | flex_wrapper::integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 89 | for (int i=0;i >&, small, const const_ref >&) [with T = short unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:142:3: required from here 105 | flex_wrapper::integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 114 | for (int i=0;i > scitbx::af::copy_slice(const const_ref >&, small) [with T = unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 202 | return copy_slice(self, slices_simple); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 228 | return boost::python::object(getitem_nd_slice(a.const_ref(), slices)); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:143:3: required from here 105 | flex_wrapper::integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 89 | for (int i=0;i >&, small, const const_ref >&) [with T = unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:143:3: required from here 105 | flex_wrapper::integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 114 | for (int i=0;i >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = long unsigned int]’ 119 | detail::copy_to_slice_detail(self, slices, other); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:140:3: required from here 105 | flex_wrapper::integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 70 | if (idx_a[j] < slices[j].stop) break; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::detail::copy_to_slice_detail(scitbx::af::versa >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = unsigned char]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = unsigned char]’ 119 | detail::copy_to_slice_detail(self, slices, other); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:141:3: required from here 105 | flex_wrapper::integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 70 | if (idx_a[j] < slices[j].stop) break; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::detail::copy_to_slice_detail(scitbx::af::versa >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = short unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = short unsigned int]’ 119 | detail::copy_to_slice_detail(self, slices, other); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:142:3: required from here 105 | flex_wrapper::integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 70 | if (idx_a[j] < slices[j].stop) break; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::detail::copy_to_slice_detail(scitbx::af::versa >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = unsigned int]’ 119 | detail::copy_to_slice_detail(self, slices, other); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1031 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:143:3: required from here 105 | flex_wrapper::integer(#pyname, scope()) \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 70 | if (idx_a[j] < slices[j].stop) break; g++ -o scitbx/array_family/boost_python/flex_double.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_double.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/accessors/flex_grid.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/flex_types.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:1: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h: In member function ‘void scitbx::af::boost_python::detail::getstate_manager::advance(char*)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:43: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:9: note: in expansion of macro ‘SCITBX_ASSERT’ 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_double.cpp: In function ‘scitbx::af::flex::type* scitbx::af::{anonymous}::from_list_or_tuple_of_lists_or_tuples(PyObject*)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:138:38: warning: comparison of integer expressions of different signedness: ‘Py_ssize_t’ {aka ‘long int’} and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 138 | if (PyList_GET_SIZE(row) != n_columns) { | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:154:39: warning: comparison of integer expressions of different signedness: ‘Py_ssize_t’ {aka ‘long int’} and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 154 | if (PyTuple_GET_SIZE(row) != n_columns) { | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:190:38: warning: comparison of integer expressions of different signedness: ‘Py_ssize_t’ {aka ‘long int’} and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 190 | if (PyList_GET_SIZE(row) != n_columns) { | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:206:39: warning: comparison of integer expressions of different signedness: ‘Py_ssize_t’ {aka ‘long int’} and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 206 | if (PyTuple_GET_SIZE(row) != n_columns) { | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_double.cpp: In function ‘std::string scitbx::af::{anonymous}::mathematica_form(const scitbx::af::const_ref >&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:452:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::small_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 452 | for (int i=1; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 454 | if (i != indices.size() - 1) o << ","; | ~~^~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:7: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/matrix/norms.h: In instantiation of ‘FloatType scitbx::matrix::norm_1(const scitbx::af::const_ref&) [with FloatType = double]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:365:26: required from here 365 | return matrix::norm_1(self); | ~~~~~~~~~~~~~~^~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/matrix/norms.h:25:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 25 | for (int i=0; i scitbx::af::boost_python::shared_from_byte_str(const boost::python::api::object&) [with ElementType = double]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:536:8: required from here 536 | def( | ~~~^ 537 | "double_from_byte_str", | ~~~~~~~~~~~~~~~~~~~~~~~ 538 | shared_from_byte_str, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 539 | (arg("byte_str"))); | ~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/byte_str.h:81:59: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/byte_str.h:81:5: note: in expansion of macro ‘SCITBX_ASSERT’ 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::first_index_a_s(const f_t&, e_t) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = double]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:963:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 963 | def("first_index", first_index_a_s); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1020 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:477:42: required from here 477 | f_w::class_f_t class_f_t(f_w::numeric("double", scope())); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:616:41: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = double]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] 616 | return first_index(a, std::bind2nd(std::equal_to(), x)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/15/bits/stl_function.h:1480, from /usr/include/c++/15/string:51, from /usr/include/boost/core/demangle.hpp:14, from /usr/include/boost/core/typeinfo.hpp:135, from /usr/include/boost/function/function_base.hpp:16, from /usr/include/boost/function/function_template.hpp:14, from /usr/include/boost/function/function0.hpp:10, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/to_python_value.hpp:14, from /usr/include/boost/python/default_call_policies.hpp:10, from /usr/include/boost/python/make_function.hpp:10, from /usr/include/boost/python/def.hpp:11, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:6: /usr/include/c++/15/backward/binders.h:172:5: note: declared here 172 | bind2nd(const _Operation& __fn, const _Tp& __x) | ^~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::last_index_a_s(const f_t&, e_t) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = double]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:964:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 964 | def("last_index", last_index_a_s); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1020 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:477:42: required from here 477 | f_w::class_f_t class_f_t(f_w::numeric("double", scope())); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:621:40: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = double]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] 621 | return last_index(a, std::bind2nd(std::equal_to(), x)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/15/backward/binders.h:172:5: note: declared here 172 | bind2nd(const _Operation& __fn, const _Tp& __x) | ^~~~~~~ In file included from /usr/include/boost/assert.hpp:64, from /usr/include/boost/optional/optional.hpp:25, from /usr/include/boost/optional.hpp:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref_reductions.h:8, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small_plain.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/accessors/flex_grid.h:5: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 769 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 770 | shared_plain, | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 771 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 772 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1020 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:477:42: required from here 477 | f_w::class_f_t class_f_t(f_w::numeric("double", scope())); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 773 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 774 | shared, | ~~~~~~~~~~~~~~~~~~~~ 775 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 776 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1020 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:477:42: required from here 477 | f_w::class_f_t class_f_t(f_w::numeric("double", scope())); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:18: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = double]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 202 | return copy_slice(self, slices_simple); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 228 | return boost::python::object(getitem_nd_slice(a.const_ref(), slices)); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1020 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:477:42: required from here 477 | f_w::class_f_t class_f_t(f_w::numeric("double", scope())); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 89 | for (int i=0;i >&, small, const const_ref >&) [with T = double]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1020 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:477:42: required from here 477 | f_w::class_f_t class_f_t(f_w::numeric("double", scope())); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 114 | for (int i=0;i >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = double]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = double]’ 119 | detail::copy_to_slice_detail(self, slices, other); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 966 | return numeric_common(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 1020 | return numeric_no_pow(python_name, flex_root_scope) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:477:42: required from here 477 | f_w::class_f_t class_f_t(f_w::numeric("double", scope())); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 70 | if (idx_a[j] < slices[j].stop) break; g++ -o scitbx/array_family/boost_python/flex_double_matrix.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_double_matrix.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_double_matrix.cpp:4: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/matrix/norms.h: In instantiation of ‘FloatType scitbx::matrix::norm_1(const scitbx::af::const_ref >&) [with FloatType = double]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_double_matrix.cpp:119:74: required from here 119 | double (*matrix_norm_1)(const_ref const &) = matrix::norm_1; | ^~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/matrix/norms.h:16:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 16 | for (int i=0; i >&) [with FloatType = double]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_double_matrix.cpp:177:11: required from here 145 | class_f_t | ~~~~~~~~~ 146 | .def("is_square_matrix", is_square_matrix) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 147 | .def("matrix_diagonal", | ~~~~~~~~~~~~~~~~~~~~~~~ 148 | (shared(*)( | ~~~~~~~~~~~~~~~~~~~ 149 | const_ref > const&)) matrix_diagonal) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 150 | .def("matrix_upper_bidiagonal", matrix_upper_bidiagonal) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 151 | .def("matrix_lower_bidiagonal", matrix_lower_bidiagonal) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 152 | .def("matrix_diagonal_set_in_place", | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 153 | (void(*)( | ~~~~~~~~~ 154 | ref > const&, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 155 | double const&)) matrix_diagonal_set_in_place, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 156 | arg("value")) | ~~~~~~~~~~~~~ 157 | .def("matrix_diagonal_set_in_place", | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 158 | (void(*)( | ~~~~~~~~~ 159 | ref > const&, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 160 | const_ref const&)) matrix_diagonal_set_in_place, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 161 | arg("diagonal")) | ~~~~~~~~~~~~~~~~ 162 | .def("matrix_diagonal_add_in_place", | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 163 | (void(*)( | ~~~~~~~~~ 164 | ref > const&, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 165 | double const&)) matrix_diagonal_add_in_place, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 166 | arg("value")) | ~~~~~~~~~~~~~ 167 | .def("matrix_diagonal_sum", | ~~~~~~~~~~~~~~~~~~~~~~~~~~~ 168 | (double(*)( | ~~~~~~~~~~~ 169 | const_ref > const&)) matrix_diagonal_sum) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 170 | .def("matrix_trace", | ~~~~~~~~~~~~~~~~~~~~ 171 | (double(*)( | ~~~~~~~~~~~ 172 | const_ref > const&)) matrix_diagonal_sum) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 173 | .def("matrix_diagonal_product", | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 174 | (double(*)( | ~~~~~~~~~~~ 175 | const_ref > const&)) matrix_diagonal_product) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 176 | .def("matrix_norm_1", matrix_norm_1) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 177 | .def("matrix_norm_inf", matrix::norm_inf) | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/matrix/norms.h:32:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 32 | for (int i=0; i >&) [with FloatType = double]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_double_matrix.cpp:178:11: required from here 145 | class_f_t | ~~~~~~~~~ 146 | .def("is_square_matrix", is_square_matrix) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 147 | .def("matrix_diagonal", | ~~~~~~~~~~~~~~~~~~~~~~~ 148 | (shared(*)( | ~~~~~~~~~~~~~~~~~~~ 149 | const_ref > const&)) matrix_diagonal) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 150 | .def("matrix_upper_bidiagonal", matrix_upper_bidiagonal) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 151 | .def("matrix_lower_bidiagonal", matrix_lower_bidiagonal) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 152 | .def("matrix_diagonal_set_in_place", | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 153 | (void(*)( | ~~~~~~~~~ 154 | ref > const&, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 155 | double const&)) matrix_diagonal_set_in_place, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 156 | arg("value")) | ~~~~~~~~~~~~~ 157 | .def("matrix_diagonal_set_in_place", | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 158 | (void(*)( | ~~~~~~~~~ 159 | ref > const&, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 160 | const_ref const&)) matrix_diagonal_set_in_place, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 161 | arg("diagonal")) | ~~~~~~~~~~~~~~~~ 162 | .def("matrix_diagonal_add_in_place", | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 163 | (void(*)( | ~~~~~~~~~ 164 | ref > const&, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 165 | double const&)) matrix_diagonal_add_in_place, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 166 | arg("value")) | ~~~~~~~~~~~~~ 167 | .def("matrix_diagonal_sum", | ~~~~~~~~~~~~~~~~~~~~~~~~~~~ 168 | (double(*)( | ~~~~~~~~~~~ 169 | const_ref > const&)) matrix_diagonal_sum) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 170 | .def("matrix_trace", | ~~~~~~~~~~~~~~~~~~~~ 171 | (double(*)( | ~~~~~~~~~~~ 172 | const_ref > const&)) matrix_diagonal_sum) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 173 | .def("matrix_diagonal_product", | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 174 | (double(*)( | ~~~~~~~~~~~ 175 | const_ref > const&)) matrix_diagonal_product) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 176 | .def("matrix_norm_1", matrix_norm_1) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 177 | .def("matrix_norm_inf", matrix::norm_inf) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 178 | .def("matrix_norm_frobenius", matrix::norm_frobenius) | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/matrix/norms.h:46:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 46 | for (int k=0; k < a_ij.size(); ++k) norm_accu(a_ij[k]); | ~~^~~~~~~~~~~~~ g++ -o scitbx/array_family/boost_python/flex_complex_double.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_complex_double.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/array_family/boost_python/flex_std_string.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_std_string.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/accessors/flex_grid.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/flex_types.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_complex_double.cpp:1: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h: In member function ‘void scitbx::af::boost_python::detail::getstate_manager::advance(char*)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:43: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:9: note: in expansion of macro ‘SCITBX_ASSERT’ 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); | ^~~~~~~~~~~~~ In file included from /usr/include/boost/assert.hpp:64, from /usr/include/boost/optional/optional.hpp:25, from /usr/include/boost/optional.hpp:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref_reductions.h:8, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small_plain.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/accessors/flex_grid.h:5: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 769 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 770 | shared_plain, | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 771 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 772 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_complex_double.cpp:117:24: required from here 117 | f_w::numeric_common("complex_double", local_scope) | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 773 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 774 | shared, | ~~~~~~~~~~~~~~~~~~~~ 775 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 776 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_complex_double.cpp:117:24: required from here 117 | f_w::numeric_common("complex_double", local_scope) | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:18: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = std::complex]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 202 | return copy_slice(self, slices_simple); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 228 | return boost::python::object(getitem_nd_slice(a.const_ref(), slices)); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_complex_double.cpp:117:24: required from here 117 | f_w::numeric_common("complex_double", local_scope) | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 89 | for (int i=0;i >&, small, const const_ref >&) [with T = std::complex]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_complex_double.cpp:117:24: required from here 117 | f_w::numeric_common("complex_double", local_scope) | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 114 | for (int i=0;i >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = std::complex]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = std::complex]’ 119 | detail::copy_to_slice_detail(self, slices, other); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 910 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_complex_double.cpp:117:24: required from here 117 | f_w::numeric_common("complex_double", local_scope) | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 70 | if (idx_a[j] < slices[j].stop) break; In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_std_string.cpp:3: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/misc/split_lines.h: In function ‘scitbx::af::shared > scitbx::misc::split_lines(const char*, std::size_t, bool, bool)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/misc/split_lines.h:24:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 24 | while (i < size) { | ~~^~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/misc/split_lines.h:25:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 25 | while (i < size && data[i] != '\n' && data[i] != '\r') i++; | ~~^~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/misc/split_lines.h:27:15: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 27 | if (i < size) { | ~~^~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/misc/split_lines.h:28:38: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 28 | if (data[i] == '\r' && i+1 < size && data[i+1] == '\n') { | ~~~~^~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/misc/split_lines.h:46:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 46 | if (j < size) { | ~~^~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_std_string.cpp:1: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::first_index_a_s(const f_t&, e_t) [with ElementType = std::__cxx11::basic_string; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >; e_t = std::__cxx11::basic_string]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:885:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::ordered(const std::string&, const boost::python::api::object&) [with ElementType = std::__cxx11::basic_string; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 885 | def("first_index", first_index_a_s); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_std_string.cpp:132:16: required from here 132 | fw::ordered("std_string", scope()) | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:616:41: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to<__cxx11::basic_string >; _Tp = __cxx11::basic_string]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] 616 | return first_index(a, std::bind2nd(std::equal_to(), x)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/15/bits/stl_function.h:1480, from /usr/include/c++/15/string:51, from /usr/include/boost/core/demangle.hpp:14, from /usr/include/boost/core/typeinfo.hpp:135, from /usr/include/boost/function/function_base.hpp:16, from /usr/include/boost/function/function_template.hpp:14, from /usr/include/boost/function/function0.hpp:10, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/to_python_value.hpp:14, from /usr/include/boost/python/default_call_policies.hpp:10, from /usr/include/boost/python/make_function.hpp:10, from /usr/include/boost/python/def.hpp:11, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:6: /usr/include/c++/15/backward/binders.h:172:5: note: declared here 172 | bind2nd(const _Operation& __fn, const _Tp& __x) | ^~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::last_index_a_s(const f_t&, e_t) [with ElementType = std::__cxx11::basic_string; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >; e_t = std::__cxx11::basic_string]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:886:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::ordered(const std::string&, const boost::python::api::object&) [with ElementType = std::__cxx11::basic_string; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 886 | def("last_index", last_index_a_s); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_std_string.cpp:132:16: required from here 132 | fw::ordered("std_string", scope()) | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:621:40: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to<__cxx11::basic_string >; _Tp = __cxx11::basic_string]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] 621 | return last_index(a, std::bind2nd(std::equal_to(), x)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/15/backward/binders.h:172:5: note: declared here 172 | bind2nd(const _Operation& __fn, const _Tp& __x) | ^~~~~~~ In file included from /usr/include/boost/assert.hpp:64, from /usr/include/boost/optional/optional.hpp:25, from /usr/include/boost/optional.hpp:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref_reductions.h:8, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small_plain.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/accessors/flex_grid.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/flex_types.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:15: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = std::__cxx11::basic_string; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 769 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 770 | shared_plain, | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 771 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 772 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:888:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::ordered(const std::string&, const boost::python::api::object&) [with ElementType = std::__cxx11::basic_string; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 888 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_std_string.cpp:132:16: required from here 132 | fw::ordered("std_string", scope()) | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = std::__cxx11::basic_string; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 773 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 774 | shared, | ~~~~~~~~~~~~~~~~~~~~ 775 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 776 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:888:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::ordered(const std::string&, const boost::python::api::object&) [with ElementType = std::__cxx11::basic_string; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 888 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_std_string.cpp:132:16: required from here 132 | fw::ordered("std_string", scope()) | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:18: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = std::__cxx11::basic_string]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = std::__cxx11::basic_string; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 202 | return copy_slice(self, slices_simple); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = std::__cxx11::basic_string; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 228 | return boost::python::object(getitem_nd_slice(a.const_ref(), slices)); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = std::__cxx11::basic_string; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:888:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::ordered(const std::string&, const boost::python::api::object&) [with ElementType = std::__cxx11::basic_string; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 888 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_std_string.cpp:132:16: required from here 132 | fw::ordered("std_string", scope()) | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 89 | for (int i=0;i >&, small, const const_ref >&) [with T = std::__cxx11::basic_string]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = std::__cxx11::basic_string; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = std::__cxx11::basic_string; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = std::__cxx11::basic_string; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:888:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::ordered(const std::string&, const boost::python::api::object&) [with ElementType = std::__cxx11::basic_string; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 888 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_std_string.cpp:132:16: required from here 132 | fw::ordered("std_string", scope()) | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 114 | for (int i=0;i >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = std::__cxx11::basic_string]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = std::__cxx11::basic_string]’ 119 | detail::copy_to_slice_detail(self, slices, other); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = std::__cxx11::basic_string; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = std::__cxx11::basic_string; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = std::__cxx11::basic_string; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:888:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::ordered(const std::string&, const boost::python::api::object&) [with ElementType = std::__cxx11::basic_string; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 888 | return plain(python_name) | ~~~~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_std_string.cpp:132:16: required from here 132 | fw::ordered("std_string", scope()) | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 70 | if (idx_a[j] < slices[j].stop) break; g++ -o scitbx/array_family/boost_python/flex_random.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_random.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/array_family/boost_python/flex_sort.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_sort.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/array_family/boost_python/flex_histogram.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_histogram.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/array_family/boost_python/flex_weighted_histogram.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_weighted_histogram.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/array_family/boost_python/flex_mean_and_variance.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_mean_and_variance.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/array_family/boost_python/flex_median.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_median.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/array_family/boost_python/flex_linear_interpolation.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_linear_interpolation.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/array_family/boost_python/flex_vec3_double.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_vec3_double.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_median.cpp:2: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/basic_statistics.h: In instantiation of ‘scitbx::math::median_statistics scitbx::math::median_functor::dispersion(const scitbx::af::ref&) [with FloatType = double]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_median.cpp:31:26: required from ‘static scitbx::math::median_statistics scitbx::af::boost_python::median_functor_wrapper::dispersion(wt&, const scitbx::af::const_ref&) [with FloatType = double; wt = scitbx::math::median_functor]’ 31 | return O.dispersion(af::make_ref(buffer)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_median.cpp:40:13: required from ‘static void scitbx::af::boost_python::median_functor_wrapper::wrap(const char*) [with FloatType = double]’ 36 | class_(name, no_init) | ~~~~~~~~~~~~~~~~~~~~~~~~~ 37 | .def(init<>()) | ~~~~~~~~~~~~~~ 38 | .def(init(arg("seed"))) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 39 | .def("__call__", call, arg("data")) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 40 | .def("dispersion", dispersion, arg("data")) | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_median.cpp:63:41: required from here 63 | median_functor_wrapper::wrap("median_functor"); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/basic_statistics.h:210:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 210 | for (int i=0; i < data.size(); ++i) { | ~~^~~~~~~~~~~~~ g++ -o scitbx/array_family/boost_python/flex_vec2_double.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_vec2_double.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/array_family/boost_python/flex_vec3_int.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_vec3_int.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/array_family/boost_python/flex_sym_mat3_double.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_sym_mat3_double.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/accessors/flex_grid.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/flex_types.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_vec3_double.cpp:3: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h: In member function ‘void scitbx::af::boost_python::detail::getstate_manager::advance(char*)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:43: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:9: note: in expansion of macro ‘SCITBX_ASSERT’ 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); | ^~~~~~~~~~~~~ In file included from /usr/include/boost/assert.hpp:64, from /usr/include/boost/optional/optional.hpp:25, from /usr/include/boost/optional.hpp:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref_reductions.h:8, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small_plain.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/accessors/flex_grid.h:5: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 769 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 770 | shared_plain, | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 771 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 772 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_vec3_double.cpp:567:15: required from here 567 | f_w::plain("vec3_double") | ~~~~~~~~~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 773 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 774 | shared, | ~~~~~~~~~~~~~~~~~~~~ 775 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 776 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_vec3_double.cpp:567:15: required from here 567 | f_w::plain("vec3_double") | ~~~~~~~~~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:18: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = scitbx::vec3]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 202 | return copy_slice(self, slices_simple); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 228 | return boost::python::object(getitem_nd_slice(a.const_ref(), slices)); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_vec3_double.cpp:567:15: required from here 567 | f_w::plain("vec3_double") | ~~~~~~~~~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 89 | for (int i=0;i >&, small, const const_ref >&) [with T = scitbx::vec3]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_vec3_double.cpp:567:15: required from here 567 | f_w::plain("vec3_double") | ~~~~~~~~~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 114 | for (int i=0;i >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = scitbx::vec3]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = scitbx::vec3]’ 119 | detail::copy_to_slice_detail(self, slices, other); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_vec3_double.cpp:567:15: required from here 567 | f_w::plain("vec3_double") | ~~~~~~~~~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 70 | if (idx_a[j] < slices[j].stop) break; In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/accessors/flex_grid.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/flex_types.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_vec2_double.cpp:3: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h: In member function ‘void scitbx::af::boost_python::detail::getstate_manager::advance(char*)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:43: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:9: note: in expansion of macro ‘SCITBX_ASSERT’ 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_vec2_double.cpp: In function ‘scitbx::af::flex >::type* scitbx::af::{anonymous}::array_indices_as_double_from_array_focus_dimensions(const scitbx::vec2&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_vec2_double.cpp:128:26: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] 128 | for(std::size_t i=0;i::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec2; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 769 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 770 | shared_plain, | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 771 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 772 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_vec2_double.cpp:440:15: required from here 440 | f_w::plain("vec2_double") | ~~~~~~~~~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec2; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 773 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 774 | shared, | ~~~~~~~~~~~~~~~~~~~~ 775 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 776 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_vec2_double.cpp:440:15: required from here 440 | f_w::plain("vec2_double") | ~~~~~~~~~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:18: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = scitbx::vec2]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = scitbx::vec2; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 202 | return copy_slice(self, slices_simple); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = scitbx::vec2; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 228 | return boost::python::object(getitem_nd_slice(a.const_ref(), slices)); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec2; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_vec2_double.cpp:440:15: required from here 440 | f_w::plain("vec2_double") | ~~~~~~~~~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 89 | for (int i=0;i >&, small, const const_ref >&) [with T = scitbx::vec2]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = scitbx::vec2; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = scitbx::vec2; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec2; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_vec2_double.cpp:440:15: required from here 440 | f_w::plain("vec2_double") | ~~~~~~~~~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 114 | for (int i=0;i >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = scitbx::vec2]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = scitbx::vec2]’ 119 | detail::copy_to_slice_detail(self, slices, other); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = scitbx::vec2; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = scitbx::vec2; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec2; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_vec2_double.cpp:440:15: required from here 440 | f_w::plain("vec2_double") | ~~~~~~~~~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 70 | if (idx_a[j] < slices[j].stop) break; In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/accessors/flex_grid.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/flex_types.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_sym_mat3_double.cpp:3: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h: In member function ‘void scitbx::af::boost_python::detail::getstate_manager::advance(char*)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:43: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:9: note: in expansion of macro ‘SCITBX_ASSERT’ 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); | ^~~~~~~~~~~~~ In file included from /usr/include/boost/assert.hpp:64, from /usr/include/boost/optional/optional.hpp:25, from /usr/include/boost/optional.hpp:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref_reductions.h:8, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small_plain.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/accessors/flex_grid.h:5: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::sym_mat3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 769 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 770 | shared_plain, | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 771 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 772 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_sym_mat3_double.cpp:124:15: required from here 124 | f_w::plain("sym_mat3_double") | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::sym_mat3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 773 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 774 | shared, | ~~~~~~~~~~~~~~~~~~~~ 775 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 776 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_sym_mat3_double.cpp:124:15: required from here 124 | f_w::plain("sym_mat3_double") | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:18: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = scitbx::sym_mat3]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = scitbx::sym_mat3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 202 | return copy_slice(self, slices_simple); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = scitbx::sym_mat3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 228 | return boost::python::object(getitem_nd_slice(a.const_ref(), slices)); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::sym_mat3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_sym_mat3_double.cpp:124:15: required from here 124 | f_w::plain("sym_mat3_double") | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 89 | for (int i=0;i >&, small, const const_ref >&) [with T = scitbx::sym_mat3]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = scitbx::sym_mat3; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = scitbx::sym_mat3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::sym_mat3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_sym_mat3_double.cpp:124:15: required from here 124 | f_w::plain("sym_mat3_double") | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 114 | for (int i=0;i >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = scitbx::sym_mat3]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = scitbx::sym_mat3]’ 119 | detail::copy_to_slice_detail(self, slices, other); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = scitbx::sym_mat3; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = scitbx::sym_mat3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::sym_mat3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_sym_mat3_double.cpp:124:15: required from here 124 | f_w::plain("sym_mat3_double") | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 70 | if (idx_a[j] < slices[j].stop) break; In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/accessors/flex_grid.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/flex_types.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_vec3_int.cpp:3: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h: In member function ‘void scitbx::af::boost_python::detail::getstate_manager::advance(char*)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:43: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:9: note: in expansion of macro ‘SCITBX_ASSERT’ 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); | ^~~~~~~~~~~~~ In file included from /usr/include/boost/assert.hpp:64, from /usr/include/boost/optional/optional.hpp:25, from /usr/include/boost/optional.hpp:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref_reductions.h:8, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small_plain.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/accessors/flex_grid.h:5: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 769 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 770 | shared_plain, | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 771 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 772 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_vec3_int.cpp:117:15: required from here 117 | f_w::plain("vec3_int") | ~~~~~~~~~~^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 773 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 774 | shared, | ~~~~~~~~~~~~~~~~~~~~ 775 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 776 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_vec3_int.cpp:117:15: required from here 117 | f_w::plain("vec3_int") | ~~~~~~~~~~^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:18: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = scitbx::vec3]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 202 | return copy_slice(self, slices_simple); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 228 | return boost::python::object(getitem_nd_slice(a.const_ref(), slices)); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_vec3_int.cpp:117:15: required from here 117 | f_w::plain("vec3_int") | ~~~~~~~~~~^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 89 | for (int i=0;i >&, small, const const_ref >&) [with T = scitbx::vec3]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_vec3_int.cpp:117:15: required from here 117 | f_w::plain("vec3_int") | ~~~~~~~~~~^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 114 | for (int i=0;i >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = scitbx::vec3]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = scitbx::vec3]’ 119 | detail::copy_to_slice_detail(self, slices, other); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_vec3_int.cpp:117:15: required from here 117 | f_w::plain("vec3_int") | ~~~~~~~~~~^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 70 | if (idx_a[j] < slices[j].stop) break; In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/flex_types.h:7: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa_plain.h: In member function ‘void scitbx::af::versa_plain::resize(const AccessorType&) [with ElementType = scitbx::sym_mat3; AccessorType = scitbx::af::flex_grid<>]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa_plain.h:168:27: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] 168 | base_class::resize(m_accessor.size_1d(), ElementType()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:307, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa_plain.h:5: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/detail/push_back_etc.h:165:12: note: by argument 3 of type ‘const scitbx::sym_mat3&’ to ‘void scitbx::af::shared_plain::resize(const size_type&, const ElementType&) [with ElementType = scitbx::sym_mat3]’ declared here 165 | void resize(size_type const& new_size, ElementType const& x) { | ^~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa_plain.h:168:50: note: ‘’ declared here 168 | base_class::resize(m_accessor.size_1d(), ElementType()); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h: In constructor ‘scitbx::af::shared_plain::shared_plain(const size_type&) [with ElementType = scitbx::sym_mat3]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:132:34: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/15/memory:71, from /usr/include/boost/function/function_base.hpp:23, from /usr/include/boost/function/function_template.hpp:14, from /usr/include/boost/function/function0.hpp:10, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/to_python_value.hpp:14, from /usr/include/boost/python/default_call_policies.hpp:10, from /usr/include/boost/python/make_function.hpp:10, from /usr/include/boost/python/def.hpp:11, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:6: /usr/include/c++/15/bits/stl_uninitialized.h:526:5: note: by argument 3 of type ‘const scitbx::sym_mat3&’ to ‘_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = scitbx::sym_mat3*; _Size = long unsigned int; _Tp = scitbx::sym_mat3]’ declared here 526 | uninitialized_fill_n(_ForwardIterator __first, _Size __n, const _Tp& __x) | ^~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:132:48: note: ‘’ declared here 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); | ^~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/flex_types.h:7: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa_plain.h: In member function ‘void scitbx::af::versa_plain::resize(const AccessorType&) [with ElementType = scitbx::vec3; AccessorType = scitbx::af::flex_grid<>]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa_plain.h:168:27: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] 168 | base_class::resize(m_accessor.size_1d(), ElementType()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:307, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa_plain.h:5: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/detail/push_back_etc.h:165:12: note: by argument 3 of type ‘const scitbx::vec3&’ to ‘void scitbx::af::shared_plain::resize(const size_type&, const ElementType&) [with ElementType = scitbx::vec3]’ declared here 165 | void resize(size_type const& new_size, ElementType const& x) { | ^~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa_plain.h:168:50: note: ‘’ declared here 168 | base_class::resize(m_accessor.size_1d(), ElementType()); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h: In constructor ‘scitbx::af::shared_plain::shared_plain(const size_type&) [with ElementType = scitbx::vec3]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:132:34: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/15/memory:71, from /usr/include/boost/function/function_base.hpp:23, from /usr/include/boost/function/function_template.hpp:14, from /usr/include/boost/function/function0.hpp:10, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/to_python_value.hpp:14, from /usr/include/boost/python/default_call_policies.hpp:10, from /usr/include/boost/python/make_function.hpp:10, from /usr/include/boost/python/def.hpp:11, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:6: /usr/include/c++/15/bits/stl_uninitialized.h:526:5: note: by argument 3 of type ‘const scitbx::vec3&’ to ‘_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = scitbx::vec3*; _Size = long unsigned int; _Tp = scitbx::vec3]’ declared here 526 | uninitialized_fill_n(_ForwardIterator __first, _Size __n, const _Tp& __x) | ^~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:132:48: note: ‘’ declared here 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); | ^~~~~~~~~~~~~ g++ -o scitbx/array_family/boost_python/flex_mat3_double.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_mat3_double.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/flex_types.h:7: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa_plain.h: In member function ‘void scitbx::af::versa_plain::resize(const AccessorType&) [with ElementType = scitbx::vec2; AccessorType = scitbx::af::flex_grid<>]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa_plain.h:168:27: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] 168 | base_class::resize(m_accessor.size_1d(), ElementType()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:307, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa_plain.h:5: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/detail/push_back_etc.h:165:12: note: by argument 3 of type ‘const scitbx::vec2&’ to ‘void scitbx::af::shared_plain::resize(const size_type&, const ElementType&) [with ElementType = scitbx::vec2]’ declared here 165 | void resize(size_type const& new_size, ElementType const& x) { | ^~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa_plain.h:168:50: note: ‘’ declared here 168 | base_class::resize(m_accessor.size_1d(), ElementType()); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h: In constructor ‘scitbx::af::shared_plain::shared_plain(const size_type&) [with ElementType = scitbx::vec2]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:132:34: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/15/memory:71, from /usr/include/boost/function/function_base.hpp:23, from /usr/include/boost/function/function_template.hpp:14, from /usr/include/boost/function/function0.hpp:10, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/to_python_value.hpp:14, from /usr/include/boost/python/default_call_policies.hpp:10, from /usr/include/boost/python/make_function.hpp:10, from /usr/include/boost/python/def.hpp:11, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:6: /usr/include/c++/15/bits/stl_uninitialized.h:526:5: note: by argument 3 of type ‘const scitbx::vec2&’ to ‘_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = scitbx::vec2*; _Size = long unsigned int; _Tp = scitbx::vec2]’ declared here 526 | uninitialized_fill_n(_ForwardIterator __first, _Size __n, const _Tp& __x) | ^~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:132:48: note: ‘’ declared here 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); | ^~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/flex_types.h:7: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa_plain.h: In member function ‘void scitbx::af::versa_plain::resize(const AccessorType&) [with ElementType = scitbx::vec3; AccessorType = scitbx::af::flex_grid<>]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa_plain.h:168:27: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] 168 | base_class::resize(m_accessor.size_1d(), ElementType()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:307, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa_plain.h:5: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/detail/push_back_etc.h:165:12: note: by argument 3 of type ‘const scitbx::vec3&’ to ‘void scitbx::af::shared_plain::resize(const size_type&, const ElementType&) [with ElementType = scitbx::vec3]’ declared here 165 | void resize(size_type const& new_size, ElementType const& x) { | ^~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa_plain.h:168:50: note: ‘’ declared here 168 | base_class::resize(m_accessor.size_1d(), ElementType()); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h: In constructor ‘scitbx::af::shared_plain::shared_plain(const size_type&) [with ElementType = scitbx::vec3]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:132:34: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/15/memory:71, from /usr/include/boost/function/function_base.hpp:23, from /usr/include/boost/function/function_template.hpp:14, from /usr/include/boost/function/function0.hpp:10, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/to_python_value.hpp:14, from /usr/include/boost/python/default_call_policies.hpp:10, from /usr/include/boost/python/make_function.hpp:10, from /usr/include/boost/python/def.hpp:11, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:6: /usr/include/c++/15/bits/stl_uninitialized.h:526:5: note: by argument 3 of type ‘const scitbx::vec3&’ to ‘_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = scitbx::vec3*; _Size = long unsigned int; _Tp = scitbx::vec3]’ declared here 526 | uninitialized_fill_n(_ForwardIterator __first, _Size __n, const _Tp& __x) | ^~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:132:48: note: ‘’ declared here 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); | ^~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/accessors/flex_grid.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/flex_types.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_mat3_double.cpp:3: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h: In member function ‘void scitbx::af::boost_python::detail::getstate_manager::advance(char*)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:43: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:9: note: in expansion of macro ‘SCITBX_ASSERT’ 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); | ^~~~~~~~~~~~~ In file included from /usr/include/boost/assert.hpp:64, from /usr/include/boost/optional/optional.hpp:25, from /usr/include/boost/optional.hpp:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref_reductions.h:8, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small_plain.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/accessors/flex_grid.h:5: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::mat3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 769 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 770 | shared_plain, | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 771 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 772 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_mat3_double.cpp:180:15: required from here 180 | f_w::plain("mat3_double") | ~~~~~~~~~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::mat3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 773 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 774 | shared, | ~~~~~~~~~~~~~~~~~~~~ 775 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 776 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_mat3_double.cpp:180:15: required from here 180 | f_w::plain("mat3_double") | ~~~~~~~~~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:18: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = scitbx::mat3]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = scitbx::mat3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 202 | return copy_slice(self, slices_simple); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = scitbx::mat3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 228 | return boost::python::object(getitem_nd_slice(a.const_ref(), slices)); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::mat3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_mat3_double.cpp:180:15: required from here 180 | f_w::plain("mat3_double") | ~~~~~~~~~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 89 | for (int i=0;i >&, small, const const_ref >&) [with T = scitbx::mat3]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = scitbx::mat3; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = scitbx::mat3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::mat3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_mat3_double.cpp:180:15: required from here 180 | f_w::plain("mat3_double") | ~~~~~~~~~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 114 | for (int i=0;i >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = scitbx::mat3]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = scitbx::mat3]’ 119 | detail::copy_to_slice_detail(self, slices, other); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = scitbx::mat3; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = scitbx::mat3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::mat3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_mat3_double.cpp:180:15: required from here 180 | f_w::plain("mat3_double") | ~~~~~~~~~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 70 | if (idx_a[j] < slices[j].stop) break; g++ -o scitbx/array_family/boost_python/flex_tiny_size_t_2.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_tiny_size_t_2.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/array_family/boost_python/loops.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/loops.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /usr/include/boost/assert.hpp:64, from /usr/include/boost/optional/optional.hpp:25, from /usr/include/boost/optional.hpp:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref_reductions.h:8, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small_plain.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/accessors/flex_grid.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/flex_types.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_tiny_size_t_2.cpp:3: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 769 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 770 | shared_plain, | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 771 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 772 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_tiny_size_t_2.cpp:32:47: required from here 32 | flex_wrapper >::plain("tiny_size_t_2") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 773 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 774 | shared, | ~~~~~~~~~~~~~~~~~~~~ 775 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 776 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_tiny_size_t_2.cpp:32:47: required from here 32 | flex_wrapper >::plain("tiny_size_t_2") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:18: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = tiny]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 202 | return copy_slice(self, slices_simple); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 228 | return boost::python::object(getitem_nd_slice(a.const_ref(), slices)); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_tiny_size_t_2.cpp:32:47: required from here 32 | flex_wrapper >::plain("tiny_size_t_2") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 89 | for (int i=0;i >&, small, const const_ref >&) [with T = tiny]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_tiny_size_t_2.cpp:32:47: required from here 32 | flex_wrapper >::plain("tiny_size_t_2") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 114 | for (int i=0;i >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = scitbx::af::tiny]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = tiny]’ 119 | detail::copy_to_slice_detail(self, slices, other); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ 269 | copy_to_slice(self, slices_simple, other.const_ref()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy]’ 289 | setitem_nd_slice(a, slices, b); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ 782 | result | ~~~~~~ 783 | .def(init const&, optional >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 784 | .def(init >()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 785 | .def(init const&>()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 | .def("element_size", element_size) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 787 | .staticmethod("element_size") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 | .def("accessor", accessor) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 789 | .def("nd", nd) | ~~~~~~~~~~~~~~ 790 | .def("is_0_based", is_0_based) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 791 | .def("origin", origin) | ~~~~~~~~~~~~~~~~~~~~~~ 792 | .def("all", all) | ~~~~~~~~~~~~~~~~ 793 | .def("last", last_0) | ~~~~~~~~~~~~~~~~~~~~ 794 | .def("last", last_1) | ~~~~~~~~~~~~~~~~~~~~ 795 | .def("is_padded", is_padded) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 796 | .def("focus", focus_0) | ~~~~~~~~~~~~~~~~~~~~~~ 797 | .def("focus", focus_1) | ~~~~~~~~~~~~~~~~~~~~~~ 798 | .def("focus_size_1d", focus_size_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 799 | .def("is_trivial_1d", is_trivial_1d) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 800 | .def("shift_origin", shift_origin) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 801 | .def("id", id) | ~~~~~~~~~~~~~~ 802 | .def("size", size) | ~~~~~~~~~~~~~~~~~~ 803 | .def("__len__", size) | ~~~~~~~~~~~~~~~~~~~~~ 804 | .def("__sizeof__", memory_footprint) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 | .def("capacity", capacity) | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 806 | .def("__getitem__", getitem_tuple) // must be before other __getitem__ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 807 | .def("__getitem__", getitem_1d_slice) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 808 | .def("__getitem__", getitem_1d, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 809 | .def("__getitem_fgdit__", getitem_fgdit, GetitemReturnValuePolicy()) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 810 | .def("__setitem__", setitem_tuple) // must be before other __setitem__ | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_tiny_size_t_2.cpp:32:47: required from here 32 | flex_wrapper >::plain("tiny_size_t_2") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 70 | if (idx_a[j] < slices[j].stop) break; g++ -o scitbx/array_family/boost_python/show_sizes.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/show_sizes.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/array_family/boost_python/numpy_bridge.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -DSCITBX_HAVE_NUMPY_INCLUDE -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/array_family/boost_python/shared_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/flex_types.h:7: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa_plain.h: In member function ‘void scitbx::af::versa_plain::resize(const AccessorType&) [with ElementType = scitbx::mat3; AccessorType = scitbx::af::flex_grid<>]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa_plain.h:168:27: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] 168 | base_class::resize(m_accessor.size_1d(), ElementType()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:307, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa_plain.h:5: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/detail/push_back_etc.h:165:12: note: by argument 3 of type ‘const scitbx::mat3&’ to ‘void scitbx::af::shared_plain::resize(const size_type&, const ElementType&) [with ElementType = scitbx::mat3]’ declared here 165 | void resize(size_type const& new_size, ElementType const& x) { | ^~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa_plain.h:168:50: note: ‘’ declared here 168 | base_class::resize(m_accessor.size_1d(), ElementType()); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h: In constructor ‘scitbx::af::shared_plain::shared_plain(const size_type&) [with ElementType = scitbx::mat3]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:132:34: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/15/memory:71, from /usr/include/boost/function/function_base.hpp:23, from /usr/include/boost/function/function_template.hpp:14, from /usr/include/boost/function/function0.hpp:10, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/to_python_value.hpp:14, from /usr/include/boost/python/default_call_policies.hpp:10, from /usr/include/boost/python/make_function.hpp:10, from /usr/include/boost/python/def.hpp:11, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:6: /usr/include/c++/15/bits/stl_uninitialized.h:526:5: note: by argument 3 of type ‘const scitbx::mat3&’ to ‘_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = scitbx::mat3*; _Size = long unsigned int; _Tp = scitbx::mat3]’ declared here 526 | uninitialized_fill_n(_ForwardIterator __first, _Size __n, const _Tp& __x) | ^~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:132:48: note: ‘’ declared here 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); | ^~~~~~~~~~~~~ g++ -o scitbx/cubicle_neighbors_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/cubicle_neighbors_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/fftpack/boost_python/fftpack_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/fftpack/boost_python/fftpack_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp: In instantiation of ‘boost::python::api::object scitbx::af::boost_python::ref_flex_as_numpy_array(const scitbx::af::ref >&, bool, int) [with ElementType = bool]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:202:3: required from here 191 | return ref_flex_as_numpy_array(O, optional, type_num); \ | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:86:23: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 86 | for(unsigned i=0;i > scitbx::af::boost_python::versa_flex_from_numpy_array(const boost::python::numpy::ndarray&) [with ElementType = bool]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:202:3: required from here 199 | versa_flex_from_numpy_array(arr_obj)); \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:132:24: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘long int’} and ‘scitbx::af::small_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 132 | SCITBX_ASSERT(ndim <= all.capacity()); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:132:5: note: in expansion of macro ‘SCITBX_ASSERT’ 132 | SCITBX_ASSERT(ndim <= all.capacity()); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:138:34: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘npy_intp’ {aka ‘long int’} [-Wsign-compare] 138 | SCITBX_ASSERT(grid.size_1d() == PyArray_Size(obj_ptr)); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:138:5: note: in expansion of macro ‘SCITBX_ASSERT’ 138 | SCITBX_ASSERT(grid.size_1d() == PyArray_Size(obj_ptr)); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp: In instantiation of ‘boost::python::api::object scitbx::af::boost_python::ref_flex_as_numpy_array(const scitbx::af::ref >&, bool, int) [with ElementType = int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:203:3: required from here 191 | return ref_flex_as_numpy_array(O, optional, type_num); \ | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:86:23: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 86 | for(unsigned i=0;i > scitbx::af::boost_python::versa_flex_from_numpy_array(const boost::python::numpy::ndarray&) [with ElementType = int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:203:3: required from here 199 | versa_flex_from_numpy_array(arr_obj)); \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:132:24: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘long int’} and ‘scitbx::af::small_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 132 | SCITBX_ASSERT(ndim <= all.capacity()); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:132:5: note: in expansion of macro ‘SCITBX_ASSERT’ 132 | SCITBX_ASSERT(ndim <= all.capacity()); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:138:34: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘npy_intp’ {aka ‘long int’} [-Wsign-compare] 138 | SCITBX_ASSERT(grid.size_1d() == PyArray_Size(obj_ptr)); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:138:5: note: in expansion of macro ‘SCITBX_ASSERT’ 138 | SCITBX_ASSERT(grid.size_1d() == PyArray_Size(obj_ptr)); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp: In instantiation of ‘boost::python::api::object scitbx::af::boost_python::ref_flex_as_numpy_array(const scitbx::af::ref >&, bool, int) [with ElementType = long int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:204:3: required from here 191 | return ref_flex_as_numpy_array(O, optional, type_num); \ | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:86:23: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 86 | for(unsigned i=0;i > scitbx::af::boost_python::versa_flex_from_numpy_array(const boost::python::numpy::ndarray&) [with ElementType = long int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:204:3: required from here 199 | versa_flex_from_numpy_array(arr_obj)); \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:132:24: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘long int’} and ‘scitbx::af::small_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 132 | SCITBX_ASSERT(ndim <= all.capacity()); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:132:5: note: in expansion of macro ‘SCITBX_ASSERT’ 132 | SCITBX_ASSERT(ndim <= all.capacity()); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:138:34: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘npy_intp’ {aka ‘long int’} [-Wsign-compare] 138 | SCITBX_ASSERT(grid.size_1d() == PyArray_Size(obj_ptr)); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:138:5: note: in expansion of macro ‘SCITBX_ASSERT’ 138 | SCITBX_ASSERT(grid.size_1d() == PyArray_Size(obj_ptr)); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp: In instantiation of ‘boost::python::api::object scitbx::af::boost_python::ref_flex_as_numpy_array(const scitbx::af::ref >&, bool, int) [with ElementType = float]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:205:3: required from here 191 | return ref_flex_as_numpy_array(O, optional, type_num); \ | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:86:23: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 86 | for(unsigned i=0;i > scitbx::af::boost_python::versa_flex_from_numpy_array(const boost::python::numpy::ndarray&) [with ElementType = float]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:205:3: required from here 199 | versa_flex_from_numpy_array(arr_obj)); \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:132:24: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘long int’} and ‘scitbx::af::small_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 132 | SCITBX_ASSERT(ndim <= all.capacity()); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:132:5: note: in expansion of macro ‘SCITBX_ASSERT’ 132 | SCITBX_ASSERT(ndim <= all.capacity()); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:138:34: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘npy_intp’ {aka ‘long int’} [-Wsign-compare] 138 | SCITBX_ASSERT(grid.size_1d() == PyArray_Size(obj_ptr)); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:138:5: note: in expansion of macro ‘SCITBX_ASSERT’ 138 | SCITBX_ASSERT(grid.size_1d() == PyArray_Size(obj_ptr)); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp: In instantiation of ‘boost::python::api::object scitbx::af::boost_python::ref_flex_as_numpy_array(const scitbx::af::ref >&, bool, int) [with ElementType = double]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:206:3: required from here 191 | return ref_flex_as_numpy_array(O, optional, type_num); \ | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:86:23: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 86 | for(unsigned i=0;i > scitbx::af::boost_python::versa_flex_from_numpy_array(const boost::python::numpy::ndarray&) [with ElementType = double]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:206:3: required from here 199 | versa_flex_from_numpy_array(arr_obj)); \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:132:24: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘long int’} and ‘scitbx::af::small_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 132 | SCITBX_ASSERT(ndim <= all.capacity()); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:132:5: note: in expansion of macro ‘SCITBX_ASSERT’ 132 | SCITBX_ASSERT(ndim <= all.capacity()); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:138:34: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘npy_intp’ {aka ‘long int’} [-Wsign-compare] 138 | SCITBX_ASSERT(grid.size_1d() == PyArray_Size(obj_ptr)); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:138:5: note: in expansion of macro ‘SCITBX_ASSERT’ 138 | SCITBX_ASSERT(grid.size_1d() == PyArray_Size(obj_ptr)); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp: In instantiation of ‘boost::python::api::object scitbx::af::boost_python::ref_flex_as_numpy_array(const scitbx::af::ref >&, bool, int) [with ElementType = std::complex]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:207:3: required from here 191 | return ref_flex_as_numpy_array(O, optional, type_num); \ | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:86:23: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 86 | for(unsigned i=0;i > scitbx::af::boost_python::versa_flex_from_numpy_array(const boost::python::numpy::ndarray&) [with ElementType = std::complex]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:207:3: required from here 199 | versa_flex_from_numpy_array(arr_obj)); \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:132:24: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘long int’} and ‘scitbx::af::small_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 132 | SCITBX_ASSERT(ndim <= all.capacity()); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:132:5: note: in expansion of macro ‘SCITBX_ASSERT’ 132 | SCITBX_ASSERT(ndim <= all.capacity()); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:138:34: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘npy_intp’ {aka ‘long int’} [-Wsign-compare] 138 | SCITBX_ASSERT(grid.size_1d() == PyArray_Size(obj_ptr)); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:138:5: note: in expansion of macro ‘SCITBX_ASSERT’ 138 | SCITBX_ASSERT(grid.size_1d() == PyArray_Size(obj_ptr)); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp: In instantiation of ‘boost::python::api::object scitbx::af::boost_python::ref_flex_as_numpy_array(const scitbx::af::ref >&, bool, int) [with ElementType = signed char]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:208:3: required from here 191 | return ref_flex_as_numpy_array(O, optional, type_num); \ | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:86:23: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 86 | for(unsigned i=0;i > scitbx::af::boost_python::versa_flex_from_numpy_array(const boost::python::numpy::ndarray&) [with ElementType = signed char]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:208:3: required from here 199 | versa_flex_from_numpy_array(arr_obj)); \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:132:24: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘long int’} and ‘scitbx::af::small_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 132 | SCITBX_ASSERT(ndim <= all.capacity()); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:132:5: note: in expansion of macro ‘SCITBX_ASSERT’ 132 | SCITBX_ASSERT(ndim <= all.capacity()); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:138:34: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘npy_intp’ {aka ‘long int’} [-Wsign-compare] 138 | SCITBX_ASSERT(grid.size_1d() == PyArray_Size(obj_ptr)); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:138:5: note: in expansion of macro ‘SCITBX_ASSERT’ 138 | SCITBX_ASSERT(grid.size_1d() == PyArray_Size(obj_ptr)); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp: In instantiation of ‘boost::python::api::object scitbx::af::boost_python::ref_flex_as_numpy_array(const scitbx::af::ref >&, bool, int) [with ElementType = short int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:209:3: required from here 191 | return ref_flex_as_numpy_array(O, optional, type_num); \ | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:86:23: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 86 | for(unsigned i=0;i > scitbx::af::boost_python::versa_flex_from_numpy_array(const boost::python::numpy::ndarray&) [with ElementType = short int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:209:3: required from here 199 | versa_flex_from_numpy_array(arr_obj)); \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:132:24: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘long int’} and ‘scitbx::af::small_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 132 | SCITBX_ASSERT(ndim <= all.capacity()); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:132:5: note: in expansion of macro ‘SCITBX_ASSERT’ 132 | SCITBX_ASSERT(ndim <= all.capacity()); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:138:34: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘npy_intp’ {aka ‘long int’} [-Wsign-compare] 138 | SCITBX_ASSERT(grid.size_1d() == PyArray_Size(obj_ptr)); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:138:5: note: in expansion of macro ‘SCITBX_ASSERT’ 138 | SCITBX_ASSERT(grid.size_1d() == PyArray_Size(obj_ptr)); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp: In instantiation of ‘boost::python::api::object scitbx::af::boost_python::ref_flex_as_numpy_array(const scitbx::af::ref >&, bool, int) [with ElementType = unsigned char]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:214:3: required from here 191 | return ref_flex_as_numpy_array(O, optional, type_num); \ | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:86:23: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 86 | for(unsigned i=0;i > scitbx::af::boost_python::versa_flex_from_numpy_array(const boost::python::numpy::ndarray&) [with ElementType = unsigned char]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:214:3: required from here 199 | versa_flex_from_numpy_array(arr_obj)); \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:132:24: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘long int’} and ‘scitbx::af::small_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 132 | SCITBX_ASSERT(ndim <= all.capacity()); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:132:5: note: in expansion of macro ‘SCITBX_ASSERT’ 132 | SCITBX_ASSERT(ndim <= all.capacity()); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:138:34: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘npy_intp’ {aka ‘long int’} [-Wsign-compare] 138 | SCITBX_ASSERT(grid.size_1d() == PyArray_Size(obj_ptr)); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:138:5: note: in expansion of macro ‘SCITBX_ASSERT’ 138 | SCITBX_ASSERT(grid.size_1d() == PyArray_Size(obj_ptr)); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp: In instantiation of ‘boost::python::api::object scitbx::af::boost_python::ref_flex_as_numpy_array(const scitbx::af::ref >&, bool, int) [with ElementType = short unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:215:3: required from here 191 | return ref_flex_as_numpy_array(O, optional, type_num); \ | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:86:23: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 86 | for(unsigned i=0;i > scitbx::af::boost_python::versa_flex_from_numpy_array(const boost::python::numpy::ndarray&) [with ElementType = short unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:215:3: required from here 199 | versa_flex_from_numpy_array(arr_obj)); \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:132:24: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘long int’} and ‘scitbx::af::small_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 132 | SCITBX_ASSERT(ndim <= all.capacity()); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:132:5: note: in expansion of macro ‘SCITBX_ASSERT’ 132 | SCITBX_ASSERT(ndim <= all.capacity()); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:138:34: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘npy_intp’ {aka ‘long int’} [-Wsign-compare] 138 | SCITBX_ASSERT(grid.size_1d() == PyArray_Size(obj_ptr)); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:138:5: note: in expansion of macro ‘SCITBX_ASSERT’ 138 | SCITBX_ASSERT(grid.size_1d() == PyArray_Size(obj_ptr)); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp: In instantiation of ‘boost::python::api::object scitbx::af::boost_python::ref_flex_as_numpy_array(const scitbx::af::ref >&, bool, int) [with ElementType = unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:216:3: required from here 191 | return ref_flex_as_numpy_array(O, optional, type_num); \ | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:86:23: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 86 | for(unsigned i=0;i > scitbx::af::boost_python::versa_flex_from_numpy_array(const boost::python::numpy::ndarray&) [with ElementType = unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:216:3: required from here 199 | versa_flex_from_numpy_array(arr_obj)); \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:132:24: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘long int’} and ‘scitbx::af::small_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 132 | SCITBX_ASSERT(ndim <= all.capacity()); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:132:5: note: in expansion of macro ‘SCITBX_ASSERT’ 132 | SCITBX_ASSERT(ndim <= all.capacity()); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:138:34: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘npy_intp’ {aka ‘long int’} [-Wsign-compare] 138 | SCITBX_ASSERT(grid.size_1d() == PyArray_Size(obj_ptr)); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:138:5: note: in expansion of macro ‘SCITBX_ASSERT’ 138 | SCITBX_ASSERT(grid.size_1d() == PyArray_Size(obj_ptr)); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp: In instantiation of ‘boost::python::api::object scitbx::af::boost_python::ref_flex_as_numpy_array(const scitbx::af::ref >&, bool, int) [with ElementType = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:224:3: required from here 191 | return ref_flex_as_numpy_array(O, optional, type_num); \ | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:86:23: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 86 | for(unsigned i=0;i > scitbx::af::boost_python::versa_flex_from_numpy_array(const boost::python::numpy::ndarray&) [with ElementType = long unsigned int]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:224:3: required from here 199 | versa_flex_from_numpy_array(arr_obj)); \ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:132:24: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘long int’} and ‘scitbx::af::small_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 132 | SCITBX_ASSERT(ndim <= all.capacity()); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:132:5: note: in expansion of macro ‘SCITBX_ASSERT’ 132 | SCITBX_ASSERT(ndim <= all.capacity()); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:138:34: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘npy_intp’ {aka ‘long int’} [-Wsign-compare] 138 | SCITBX_ASSERT(grid.size_1d() == PyArray_Size(obj_ptr)); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:138:5: note: in expansion of macro ‘SCITBX_ASSERT’ 138 | SCITBX_ASSERT(grid.size_1d() == PyArray_Size(obj_ptr)); | ^~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/flex_types.h:7: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa_plain.h: In member function ‘void scitbx::af::versa_plain::resize(const AccessorType&) [with ElementType = scitbx::af::tiny; AccessorType = scitbx::af::flex_grid<>]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa_plain.h:168:27: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] 168 | base_class::resize(m_accessor.size_1d(), ElementType()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:307, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa_plain.h:5: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/detail/push_back_etc.h:165:12: note: by argument 3 of type ‘const scitbx::af::tiny&’ to ‘void scitbx::af::shared_plain::resize(const size_type&, const ElementType&) [with ElementType = scitbx::af::tiny]’ declared here 165 | void resize(size_type const& new_size, ElementType const& x) { | ^~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa_plain.h:168:50: note: ‘’ declared here 168 | base_class::resize(m_accessor.size_1d(), ElementType()); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h: In constructor ‘scitbx::af::shared_plain::shared_plain(const size_type&) [with ElementType = scitbx::af::tiny]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:132:34: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/15/memory:71, from /usr/include/boost/function/function_base.hpp:23, from /usr/include/boost/function/function_template.hpp:14, from /usr/include/boost/function/function0.hpp:10, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/to_python_value.hpp:14, from /usr/include/boost/python/default_call_policies.hpp:10, from /usr/include/boost/python/make_function.hpp:10, from /usr/include/boost/python/def.hpp:11, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:6: /usr/include/c++/15/bits/stl_uninitialized.h:526:5: note: by argument 3 of type ‘const scitbx::af::tiny&’ to ‘_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = scitbx::af::tiny*; _Size = long unsigned int; _Tp = scitbx::af::tiny]’ declared here 526 | uninitialized_fill_n(_ForwardIterator __first, _Size __n, const _Tp& __x) | ^~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:132:48: note: ‘’ declared here 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); | ^~~~~~~~~~~~~ In file included from /usr/include/boost/assert.hpp:64, from /usr/include/boost/optional/optional.hpp:25, from /usr/include/boost/optional.hpp:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref_reductions.h:8, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:31, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:12, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_ext.cpp:3: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = std::vector; GetitemReturnValuePolicy = boost::python::return_internal_reference<>; std::string = std::__cxx11::basic_string]’ 130 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 131 | w_t, | ~~~~ 132 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_ext.cpp:40:53: required from here 40 | shared_wrapper, rir>::wrap("stl_vector_unsigned"); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = std::vector; GetitemReturnValuePolicy = boost::python::return_internal_reference<>; std::string = std::__cxx11::basic_string]’ 130 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 131 | w_t, | ~~~~ 132 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_ext.cpp:41:51: required from here 41 | shared_wrapper, rir>::wrap("stl_vector_double"); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = std::set; GetitemReturnValuePolicy = boost::python::return_internal_reference<>; std::string = std::__cxx11::basic_string]’ 130 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 131 | w_t, | ~~~~ 132 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_ext.cpp:42:50: required from here 42 | shared_wrapper, rir>::wrap("stl_set_unsigned") | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = scitbx::mat3; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ 130 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 131 | w_t, | ~~~~ 132 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_ext.cpp:48:37: required from here 48 | shared_wrapper >::wrap("mat3_int"); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ 130 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 131 | w_t, | ~~~~ 132 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_ext.cpp:49:40: required from here 49 | shared_wrapper >::wrap("tiny_int_3"); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ 130 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 131 | w_t, | ~~~~ 132 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_ext.cpp:50:40: required from here 50 | shared_wrapper >::wrap("tiny_int_4"); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ 130 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 131 | w_t, | ~~~~ 132 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/shared_ext.cpp:51:40: required from here 51 | shared_wrapper >::wrap("tiny_int_2"); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/cubicle_neighbors_ext.cpp:3: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/cubicle_neighbors.hpp: In instantiation of ‘std::map > scitbx::cubicle_neighbors::neighbors_of(const scitbx::af::const_ref >&, const FloatType&) [with FloatType = double]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/cubicle_neighbors_ext.cpp:23:36: required from here 23 | .def("neighbors_of", &w_t::neighbors_of, ( | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/cubicle_neighbors.hpp:61:40: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const unsigned int’ [-Wsign-compare] 61 | if (i_cub[0] < 0 || i_cub[0] >= n_cubicles[0]) continue; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/cubicle_neighbors.hpp:63:40: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const unsigned int’ [-Wsign-compare] 63 | if (i_cub[1] < 0 || i_cub[1] >= n_cubicles[1]) continue; /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/cubicle_neighbors.hpp:65:40: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const unsigned int’ [-Wsign-compare] 65 | if (i_cub[2] < 0 || i_cub[2] >= n_cubicles[2]) continue; In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/cubicle_neighbors.hpp:4: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/cubicles.h: In instantiation of ‘scitbx::vec3 scitbx::cubicles::i_cubicle(const SiteType&) const [with SiteType = scitbx::vec3; CubicleContentType = std::vector::cubicle_site, std::allocator::cubicle_site> >; FloatType = double]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/cubicle_neighbors.hpp:43:30: required from ‘scitbx::cubicle_neighbors::cubicle_neighbors(const scitbx::af::const_ref >&, const FloatType&, const FloatType&) [with FloatType = double]’ 43 | cubicles_.i_cubicle(main_sites_cart[i_seq])); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/boost/python/object/value_holder.hpp:131:11: required from ‘boost::python::objects::value_holder::value_holder(PyObject*, A0, A1, A2) [with A0 = boost::python::objects::reference_to_value >&>; A1 = boost::python::objects::reference_to_value; A2 = boost::python::objects::reference_to_value; Value = scitbx::cubicle_neighbors<>; PyObject = _object]’ 131 | PyObject* self BOOST_PP_COMMA_IF(N) BOOST_PP_ENUM_BINARY_PARAMS_Z(1, N, A, a)) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 132 | : m_held( | ~~~~~~~~~ 133 | BOOST_PP_REPEAT_1ST(N, BOOST_PYTHON_UNFORWARD_LOCAL, nil) | ~ /usr/include/boost/python/object/make_holder.hpp:95:18: required from ‘static void boost::python::objects::make_holder<3>::apply::execute(PyObject*, t0, t1, t2) [with Holder = boost::python::objects::value_holder >; ArgList = boost::mpl::vector3 >&, const double&, const double&>; PyObject = _object; t0 = const scitbx::af::const_ref >&; t1 = const double&; t2 = const double&]’ 95 | try { | ~^ 96 | (new (memory) Holder( | ~~~~~~~~~~~~~~~~~~~~~ /usr/include/boost/python/detail/make_keyword_range_fn.hpp:63:47: required from ‘boost::python::api::object boost::python::detail::make_keyword_range_constructor(const CallPolicies&, const keyword_range&, Holder*, ArgList*, Arity*) [with ArgList = boost::mpl::vector3 >&, const double&, const double&>; Arity = boost::mpl::size >&, const double&, const double&> >; Holder = boost::python::objects::value_holder >; CallPolicies = boost::python::default_call_policies; keyword_range = std::pair]’ 63 | return detail::make_keyword_range_function( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 64 | objects::make_holder | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 65 | ::template apply::execute | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 66 | , policies | ~~~~~~~~~~ 67 | , kw); | ~~~~~ /usr/include/boost/python/init.hpp:310:66: required from ‘void boost::python::detail::def_init_aux(ClassT&, const Signature&, NArgs, const CallPoliciesT&, const char*, const keyword_range&) [with ClassT = boost::python::class_ >; CallPoliciesT = boost::python::default_call_policies; Signature = boost::mpl::vector3 >&, const double&, const double&>; NArgs = boost::mpl::size >&, const double&, const double&> >; keyword_range = std::pair]’ 310 | , detail::make_keyword_range_constructor( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 311 | policies | ~~~~~~~~ 312 | , keywords_ | ~~~~~~~~~~~ 313 | , (typename ClassT::metadata::holder*)0 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 314 | ) | ~ /usr/include/boost/python/init.hpp:377:31: required from ‘static void boost::python::detail::define_class_init_helper<0>::apply(ClassT&, const CallPoliciesT&, const Signature&, NArgs, const char*, const boost::python::detail::keyword_range&) [with ClassT = boost::python::class_ >; CallPoliciesT = boost::python::default_call_policies; Signature = boost::mpl::vector3 >&, const double&, const double&>; NArgs = boost::mpl::size >&, const double&, const double&> >; boost::python::detail::keyword_range = std::pair]’ 377 | detail::def_init_aux(cl, args, NArgs(), policies, doc, keywords); | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/boost/python/init.hpp:149:67: required from ‘void boost::python::init_base::visit(classT&) const [with classT = boost::python::class_ >; DerivedT = boost::python::init >&, const double&, const double&>]’ 149 | detail::define_class_init_helper::apply( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 150 | cl | ~~ 151 | , derived().call_policies() | ~~~~~~~~~~~~~~~~~~~~~~~~~~~ 152 | , signature() | ~~~~~~~~~~~~~ 153 | , n_arguments() | ~~~~~~~~~~~~~~~ 154 | , derived().doc_string() | ~~~~~~~~~~~~~~~~~~~~~~~~ 155 | , derived().keywords()); | ~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/boost/python/def_visitor.hpp:31:34: required from ‘static void boost::python::def_visitor_access::visit(const V&, classT&) [with V = boost::python::def_visitor >&, const double&, const double&> >; classT = boost::python::class_ >]’ 31 | v.derived_visitor().visit(c); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /usr/include/boost/python/def_visitor.hpp:67:34: required from ‘void boost::python::def_visitor::visit(classT&) const [with classT = boost::python::class_ >; DerivedVisitor = boost::python::init >&, const double&, const double&>]’ 67 | def_visitor_access::visit(*this, c); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /usr/include/boost/python/class.hpp:221:22: required from ‘boost::python::class_::self& boost::python::class_::def(const boost::python::def_visitor&) [with Derived = boost::python::init >&, const double&, const double&>; W = scitbx::cubicle_neighbors<>; X1 = boost::python::detail::not_specified; X2 = boost::python::detail::not_specified; X3 = boost::python::detail::not_specified; self = boost::python::class_ >]’ 221 | visitor.visit(*this); | ~~~~~~~~~~~~~^~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/cubicle_neighbors_ext.cpp:16:13: required from here 15 | class_("cubicle_neighbors", no_init) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 16 | .def(init< | ~~~~^~~~~~ 17 | af::const_ref > const&, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 18 | double const&, | ~~~~~~~~~~~~~~ 19 | double const&>(( | ~~~~~~~~~~~~~~~~ 20 | arg("main_sites_cart"), | ~~~~~~~~~~~~~~~~~~~~~~~ 21 | arg("cubicle_edge"), | ~~~~~~~~~~~~~~~~~~~~ 22 | arg("epsilon")=1.e-6))) | ~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/cubicles.h:176:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const unsigned int’ [-Wsign-compare] 176 | else if (j >= ref.accessor()[i]) j = ref.accessor()[i]-1; | ~~^~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/fftpack/gridding.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/fftpack/boost_python/fftpack_ext.cpp:4: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/fftpack/factorization.h: In constructor ‘scitbx::fftpack::factorization::factorization(std::size_t, bool)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/fftpack/factorization.h:64:32: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::tiny_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 64 | for (i = 0; red_n > 1 && i < opt_factors.size(); i++) { | ~~^~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/fftpack/factorization.h:67:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::tiny_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 67 | for (i = 0; i < opt_factors.size(); i++) { | ~~^~~~~~~~~~~~~~~~~~~~ g++ -o scitbx/glmtbx/boost_python/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/glmtbx/boost_python/ext.cc cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/graphics_utils/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/graphics_utils/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/scitbx_cubicle_neighbors_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_cubicle_neighbors_ext.so.0 scitbx/cubicle_neighbors_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/scitbx_cubicle_neighbors_ext.so.0.0.1' 'lib/scitbx_cubicle_neighbors_ext.so.0'->'lib/scitbx_cubicle_neighbors_ext.so.0.0.1' 'lib/scitbx_cubicle_neighbors_ext.so'->'lib/scitbx_cubicle_neighbors_ext.so.0.0.1' g++ -o scitbx/iso_surface/iso_surface_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/iso_surface/iso_surface_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/scitbx_array_family_flex_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_array_family_flex_ext.so.0 scitbx/array_family/boost_python/flex_ext.o scitbx/array_family/boost_python/flex_grid.o scitbx/array_family/boost_python/flex_bool.o scitbx/array_family/boost_python/flex_size_t.o scitbx/array_family/boost_python/flex_int.o scitbx/array_family/boost_python/flex_float.o scitbx/array_family/boost_python/flex_double.o scitbx/array_family/boost_python/flex_double_matrix.o scitbx/array_family/boost_python/flex_complex_double.o scitbx/array_family/boost_python/flex_std_string.o scitbx/array_family/boost_python/flex_random.o scitbx/array_family/boost_python/flex_sort.o scitbx/array_family/boost_python/flex_histogram.o scitbx/array_family/boost_python/flex_weighted_histogram.o scitbx/array_family/boost_python/flex_mean_and_variance.o scitbx/array_family/boost_python/flex_median.o scitbx/array_family/boost_python/flex_linear_interpolation.o scitbx/array_family/boost_python/flex_vec3_double.o scitbx/array_family/boost_python/flex_vec2_double.o scitbx/array_family/boost_python/flex_vec3_int.o scitbx/array_family/boost_python/flex_sym_mat3_double.o scitbx/array_family/boost_python/flex_mat3_double.o scitbx/array_family/boost_python/flex_tiny_size_t_2.o scitbx/array_family/boost_python/loops.o scitbx/array_family/boost_python/show_sizes.o scitbx/array_family/boost_python/numpy_bridge.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_python313 -lm -lboost_numpy313 Create symlinks for: 'lib/scitbx_array_family_flex_ext.so.0.0.1' 'lib/scitbx_array_family_flex_ext.so.0'->'lib/scitbx_array_family_flex_ext.so.0.0.1' 'lib/scitbx_array_family_flex_ext.so'->'lib/scitbx_array_family_flex_ext.so.0.0.1' g++ -o scitbx/lbfgs/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DSCITBX_LBFGS_HAVE_LBFGS_FEM -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgs/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/scitbx_iso_surface_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_iso_surface_ext.so.0 scitbx/iso_surface/iso_surface_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/scitbx_iso_surface_ext.so.0.0.1' 'lib/scitbx_iso_surface_ext.so.0'->'lib/scitbx_iso_surface_ext.so.0.0.1' 'lib/scitbx_iso_surface_ext.so'->'lib/scitbx_iso_surface_ext.so.0.0.1' g++ -o scitbx/lbfgs/lbfgs_fem.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable scitbx/lbfgs/lbfgs_fem.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/io.hpp:8, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/close_chain.hpp:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/common.hpp:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/read.hpp:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/major_types.hpp:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem.hpp:10, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include/scitbx/lbfgs_fem.hpp:1, from scitbx/lbfgs/lbfgs_fem.cpp:1: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/utils/simple_streams.hpp: In member function ‘virtual void fem::utils::simple_ostream_to_char_ptr_and_size::put(char)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/utils/simple_streams.hpp:63:13: warning: comparison of integer expressions of different signedness: ‘fem::ssize_t’ {aka ‘long int’} and ‘fem::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 63 | if (i < sz) s[i++] = c; | ~~^~~~ g++ -o lib/scitbx_glmtbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_glmtbx_ext.so.0 scitbx/glmtbx/boost_python/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_python313 -lm /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/common.hpp: In member function ‘void fem::common::getarg(int, fem::str_ref) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/common.hpp:40:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 40 | if (pos < 0 || pos >= command_line_args.buffer.size()) { | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/utils/string_to_double_fmt.hpp:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/read.hpp:9: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/utils/string_to_double.hpp: In member function ‘void fem::utils::string_to_double::convert(fem::utils::simple_istream&, unsigned int, int)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/utils/string_to_double.hpp:115:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const unsigned int’ [-Wsign-compare] 115 | if (dexp <= ad_hoc_limits::max_digit_count) { | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/read.hpp: In member function ‘double fem::read_loop::read_fmt_double()’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/read.hpp:653:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 653 | if (iw+1 != ed.size()) { | ~~~~~^~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/variant.hpp:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/major_types.hpp:7: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/utils/equivalence.hpp: In member function ‘void fem::utils::equivalence::array_alignment::infer_diffs0_from_diff_matrix()’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/utils/equivalence.hpp:93:28: warning: comparison of integer expressions of different signedness: ‘const fem::ssize_t’ {aka ‘const long int’} and ‘fem::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 93 | if (c0e[0] == i0) { | ~~~~~~~^~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/major_types.hpp:8: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/write.hpp: In destructor ‘fem::write_loop::~write_loop()’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/write.hpp:704:24: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 704 | while (pos < internal_file_len) { | ~~~~^~~~~~~~~~~~~~~~~~~ Create symlinks for: 'lib/scitbx_glmtbx_ext.so.0.0.1' 'lib/scitbx_glmtbx_ext.so.0'->'lib/scitbx_glmtbx_ext.so.0.0.1' 'lib/scitbx_glmtbx_ext.so'->'lib/scitbx_glmtbx_ext.so.0.0.1' g++ -o scitbx/lbfgsb/boost_python/lbfgsb_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/boost_python/lbfgsb_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/scitbx_fftpack_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_fftpack_ext.so.0 scitbx/fftpack/boost_python/fftpack_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lomptbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/scitbx_fftpack_ext.so.0.0.1' 'lib/scitbx_fftpack_ext.so.0'->'lib/scitbx_fftpack_ext.so.0.0.1' 'lib/scitbx_fftpack_ext.so'->'lib/scitbx_fftpack_ext.so.0.0.1' g++ -o scitbx/linalg/boost_python/linalg_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/linalg/boost_python/linalg_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/linalg/boost_python/matrix.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/linalg/boost_python/matrix.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/scitbx_graphics_utils_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_graphics_utils_ext.so.0 scitbx/graphics_utils/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/scitbx_graphics_utils_ext.so.0.0.1' 'lib/scitbx_graphics_utils_ext.so.0'->'lib/scitbx_graphics_utils_ext.so.0.0.1' 'lib/scitbx_graphics_utils_ext.so'->'lib/scitbx_graphics_utils_ext.so.0.0.1' g++ -o scitbx/linalg/boost_python/cholesky.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/linalg/boost_python/cholesky.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/linalg/boost_python/householder.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/linalg/boost_python/householder.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/serialization/base_256.h:2, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/floating_point_epsilon.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb.h:8, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/boost_python/lbfgsb_ext.cpp:3: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h: In instantiation of ‘void scitbx::lbfgsb::raw::mainlb(const int&, const int&, const ref1&, const ref1&, const ref1&, const ref1&, FloatType&, const ref1&, const FloatType&, const FloatType&, const ref2&, const ref2&, const ref2&, const ref2&, const ref2&, const ref2&, const ref2&, const ref2&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, std::string&, const int&, std::string&, const ref1&, const ref1&, const ref1&, bool) [with FloatType = double; std::string = std::__cxx11::basic_string]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:4433:11: required from ‘void scitbx::lbfgsb::raw::setulb(const int&, const int&, const ref1&, const ref1&, const ref1&, const ref1&, FloatType&, const ref1&, const FloatType&, const FloatType&, const ref1&, const ref1&, std::string&, const int&, std::string&, const ref1&, const ref1&, const ref1&, bool) [with FloatType = double; std::string = std::__cxx11::basic_string]’ 4433 | mainlb(n,m,x,l,u,nbd,f,g,factr,pgtol, | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 4434 | wa.get2(lws, n, m), | ~~~~~~~~~~~~~~~~~~~ 4435 | wa.get2(lwy, n, m), | ~~~~~~~~~~~~~~~~~~~ 4436 | wa.get2(lsy, m, m), | ~~~~~~~~~~~~~~~~~~~ 4437 | wa.get2(lss, m, m), | ~~~~~~~~~~~~~~~~~~~ 4438 | wa.get2(lyy, m, m), | ~~~~~~~~~~~~~~~~~~~ 4439 | wa.get2(lwt, m, m), | ~~~~~~~~~~~~~~~~~~~ 4440 | wa.get2(lwn, 2*m, 2*m), | ~~~~~~~~~~~~~~~~~~~~~~~ 4441 | wa.get2(lsnd, 2*m, 2*m), | ~~~~~~~~~~~~~~~~~~~~~~~~ 4442 | wa.get1(lz, n), | ~~~~~~~~~~~~~~~ 4443 | wa.get1(lr, n), | ~~~~~~~~~~~~~~~ 4444 | wa.get1(ld, n), | ~~~~~~~~~~~~~~~ 4445 | wa.get1(lt, n), | ~~~~~~~~~~~~~~~ 4446 | wa.get1(lwa, 8*m), | ~~~~~~~~~~~~~~~~~~ 4447 | wa.get1(lsg, m), | ~~~~~~~~~~~~~~~~ 4448 | wa.get1(lsgo, m), | ~~~~~~~~~~~~~~~~~ 4449 | wa.get1(lyg, m), | ~~~~~~~~~~~~~~~~ 4450 | wa.get1(lygo, m), | ~~~~~~~~~~~~~~~~~ 4451 | iwa.get1(1, n), | ~~~~~~~~~~~~~~~ 4452 | iwa.get1(n+1, n), | ~~~~~~~~~~~~~~~~~ 4453 | iwa.get1(2*n+1, n), | ~~~~~~~~~~~~~~~~~~~ 4454 | task,iprint,csave,lsave, | ~~~~~~~~~~~~~~~~~~~~~~~~ 4455 | ref1(&isave(22), 23), | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 4456 | dsave, | ~~~~~~ 4457 | enable_stp_init); | ~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb.h:142:22: required from ‘bool scitbx::lbfgsb::minimizer::process(const scitbx::af::ref&, const FloatType&, const scitbx::af::ref&, bool) [with FloatType = double]’ 142 | raw::setulb( | ~~~~~~~~~~~^ 143 | n_, | ~~~ 144 | m_, | ~~~ 145 | raw::ref1(x), | ~~~~~~~~~~~~~~~~~~~~~~~~ 146 | raw::ref1(l_.ref()), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 147 | raw::ref1(u_.ref()), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 148 | raw::ref1(nbd_.ref()), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~ 149 | f_, | ~~~ 150 | raw::ref1(g), | ~~~~~~~~~~~~~~~~~~~~~~~~ 151 | factr_, | ~~~~~~~ 152 | pgtol_, | ~~~~~~~ 153 | raw::ref1(wa_.ref()), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 154 | raw::ref1(iwa_.ref()), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~ 155 | task_, | ~~~~~~ 156 | iprint_, | ~~~~~~~~ 157 | csave_, | ~~~~~~~ 158 | raw::ref1(lsave_.ref()), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 159 | raw::ref1(isave_.ref()), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 160 | raw::ref1(dsave_.ref()), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 161 | enable_stp_init_); | ~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/boost_python/lbfgsb_ext.cpp:29:25: required from ‘static void scitbx::lbfgsb::{anonymous}::minimizer_wrappers::wrap() [with FloatType = double]’ 29 | .def("process", &w_t::process, ( | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/boost_python/lbfgsb_ext.cpp:112:37: required from here 112 | minimizer_wrappers::wrap(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3671:28: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] 3671 | SCITBX_ASSERT(x.size() == n); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3671:5: note: in expansion of macro ‘SCITBX_ASSERT’ 3671 | SCITBX_ASSERT(x.size() == n); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3672:28: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] 3672 | SCITBX_ASSERT(l.size() == n); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3672:5: note: in expansion of macro ‘SCITBX_ASSERT’ 3672 | SCITBX_ASSERT(l.size() == n); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3673:28: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] 3673 | SCITBX_ASSERT(u.size() == n); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3673:5: note: in expansion of macro ‘SCITBX_ASSERT’ 3673 | SCITBX_ASSERT(u.size() == n); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3674:30: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] 3674 | SCITBX_ASSERT(nbd.size() == n); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3674:5: note: in expansion of macro ‘SCITBX_ASSERT’ 3674 | SCITBX_ASSERT(nbd.size() == n); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3675:28: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] 3675 | SCITBX_ASSERT(g.size() == n); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3675:5: note: in expansion of macro ‘SCITBX_ASSERT’ 3675 | SCITBX_ASSERT(g.size() == n); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h: In instantiation of ‘void scitbx::lbfgsb::raw::write_ref1(const std::string&, const ref1&, const char*) [with ElementType = double; std::string = std::__cxx11::basic_string]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:974:19: required from ‘void scitbx::lbfgsb::raw::prn3lb(const int&, const ref1&, const FloatType&, const std::string&, const int&, const int&, const int&, const int&, const int&, const int&, const int&, const int&, const FloatType&, const FloatType&, const int&, const std::string&, const int&, const FloatType&, const FloatType&, const int&, const FloatType&, const FloatType&, const FloatType&) [with FloatType = double; std::string = std::__cxx11::basic_string]’ 974 | write_ref1(" X =", x); | ~~~~~~~~~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3786:15: required from ‘void scitbx::lbfgsb::raw::mainlb(const int&, const int&, const ref1&, const ref1&, const ref1&, const ref1&, FloatType&, const ref1&, const FloatType&, const FloatType&, const ref2&, const ref2&, const ref2&, const ref2&, const ref2&, const ref2&, const ref2&, const ref2&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, std::string&, const int&, std::string&, const ref1&, const ref1&, const ref1&, bool) [with FloatType = double; std::string = std::__cxx11::basic_string]’ 3786 | prn3lb(n,x,f,task,iprint,info,itfile, | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 3787 | iter,nfgv,nintol,nskip,nact,sbgnrm, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 3788 | zero,nint,word,iback,stp,xstep,k, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 3789 | cachyt,sbtime,lnscht); | ~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:4433:11: required from ‘void scitbx::lbfgsb::raw::setulb(const int&, const int&, const ref1&, const ref1&, const ref1&, const ref1&, FloatType&, const ref1&, const FloatType&, const FloatType&, const ref1&, const ref1&, std::string&, const int&, std::string&, const ref1&, const ref1&, const ref1&, bool) [with FloatType = double; std::string = std::__cxx11::basic_string]’ 4433 | mainlb(n,m,x,l,u,nbd,f,g,factr,pgtol, | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 4434 | wa.get2(lws, n, m), | ~~~~~~~~~~~~~~~~~~~ 4435 | wa.get2(lwy, n, m), | ~~~~~~~~~~~~~~~~~~~ 4436 | wa.get2(lsy, m, m), | ~~~~~~~~~~~~~~~~~~~ 4437 | wa.get2(lss, m, m), | ~~~~~~~~~~~~~~~~~~~ 4438 | wa.get2(lyy, m, m), | ~~~~~~~~~~~~~~~~~~~ 4439 | wa.get2(lwt, m, m), | ~~~~~~~~~~~~~~~~~~~ 4440 | wa.get2(lwn, 2*m, 2*m), | ~~~~~~~~~~~~~~~~~~~~~~~ 4441 | wa.get2(lsnd, 2*m, 2*m), | ~~~~~~~~~~~~~~~~~~~~~~~~ 4442 | wa.get1(lz, n), | ~~~~~~~~~~~~~~~ 4443 | wa.get1(lr, n), | ~~~~~~~~~~~~~~~ 4444 | wa.get1(ld, n), | ~~~~~~~~~~~~~~~ 4445 | wa.get1(lt, n), | ~~~~~~~~~~~~~~~ 4446 | wa.get1(lwa, 8*m), | ~~~~~~~~~~~~~~~~~~ 4447 | wa.get1(lsg, m), | ~~~~~~~~~~~~~~~~ 4448 | wa.get1(lsgo, m), | ~~~~~~~~~~~~~~~~~ 4449 | wa.get1(lyg, m), | ~~~~~~~~~~~~~~~~ 4450 | wa.get1(lygo, m), | ~~~~~~~~~~~~~~~~~ 4451 | iwa.get1(1, n), | ~~~~~~~~~~~~~~~ 4452 | iwa.get1(n+1, n), | ~~~~~~~~~~~~~~~~~ 4453 | iwa.get1(2*n+1, n), | ~~~~~~~~~~~~~~~~~~~ 4454 | task,iprint,csave,lsave, | ~~~~~~~~~~~~~~~~~~~~~~~~ 4455 | ref1(&isave(22), 23), | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 4456 | dsave, | ~~~~~~ 4457 | enable_stp_init); | ~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb.h:142:22: required from ‘bool scitbx::lbfgsb::minimizer::process(const scitbx::af::ref&, const FloatType&, const scitbx::af::ref&, bool) [with FloatType = double]’ 142 | raw::setulb( | ~~~~~~~~~~~^ 143 | n_, | ~~~ 144 | m_, | ~~~ 145 | raw::ref1(x), | ~~~~~~~~~~~~~~~~~~~~~~~~ 146 | raw::ref1(l_.ref()), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 147 | raw::ref1(u_.ref()), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 148 | raw::ref1(nbd_.ref()), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~ 149 | f_, | ~~~ 150 | raw::ref1(g), | ~~~~~~~~~~~~~~~~~~~~~~~~ 151 | factr_, | ~~~~~~~ 152 | pgtol_, | ~~~~~~~ 153 | raw::ref1(wa_.ref()), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 154 | raw::ref1(iwa_.ref()), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~ 155 | task_, | ~~~~~~ 156 | iprint_, | ~~~~~~~~ 157 | csave_, | ~~~~~~~ 158 | raw::ref1(lsave_.ref()), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 159 | raw::ref1(isave_.ref()), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 160 | raw::ref1(dsave_.ref()), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 161 | enable_stp_init_); | ~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/boost_python/lbfgsb_ext.cpp:29:25: required from ‘static void scitbx::lbfgsb::{anonymous}::minimizer_wrappers::wrap() [with FloatType = double]’ 29 | .def("process", &w_t::process, ( | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/boost_python/lbfgsb_ext.cpp:112:37: required from here 112 | minimizer_wrappers::wrap(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:184:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 184 | for(int i=1;i<=a.size();i++) { | ~^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:188:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 188 | for(int j=0;j::minimizer(const int&, const int&, scitbx::af::shared, scitbx::af::shared, scitbx::af::shared, bool, const FloatType&, const FloatType&, const int&) [with FloatType = double]’: /usr/include/boost/python/object/value_holder.hpp:131:11: required from ‘boost::python::objects::value_holder::value_holder(PyObject*, A0, A1, A2, A3, A4, A5, A6, A7, A8) [with A0 = boost::python::objects::reference_to_value; A1 = boost::python::objects::reference_to_value; A2 = boost::python::objects::reference_to_value >; A3 = boost::python::objects::reference_to_value >; A4 = boost::python::objects::reference_to_value >; A5 = bool; A6 = boost::python::objects::reference_to_value; A7 = boost::python::objects::reference_to_value; A8 = boost::python::objects::reference_to_value; Value = scitbx::lbfgsb::minimizer; PyObject = _object]’ 131 | PyObject* self BOOST_PP_COMMA_IF(N) BOOST_PP_ENUM_BINARY_PARAMS_Z(1, N, A, a)) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 132 | : m_held( | ~~~~~~~~~ 133 | BOOST_PP_REPEAT_1ST(N, BOOST_PYTHON_UNFORWARD_LOCAL, nil) | ~ /usr/include/boost/python/object/make_holder.hpp:95:18: required from ‘static void boost::python::objects::make_holder<9>::apply::execute(PyObject*, t0, t1, t2, t3, t4, t5, t6, t7, t8) [with Holder = boost::python::objects::value_holder >; ArgList = boost::mpl::vector9, scitbx::af::shared, scitbx::af::shared, bool, const double&, const double&, const int&>; PyObject = _object; t0 = const int&; t1 = const int&; t2 = scitbx::af::shared; t3 = scitbx::af::shared; t4 = scitbx::af::shared; t5 = bool; t6 = const double&; t7 = const double&; t8 = const int&]’ 95 | try { | ~^ 96 | (new (memory) Holder( | ~~~~~~~~~~~~~~~~~~~~~ /usr/include/boost/python/detail/make_keyword_range_fn.hpp:63:47: required from ‘boost::python::api::object boost::python::detail::make_keyword_range_constructor(const CallPolicies&, const keyword_range&, Holder*, ArgList*, Arity*) [with ArgList = boost::mpl::vector9, scitbx::af::shared, scitbx::af::shared, bool, const double&, const double&, const int&>; Arity = boost::mpl::size, scitbx::af::shared, scitbx::af::shared, bool, const double&, const double&, const int&> >; Holder = boost::python::objects::value_holder >; CallPolicies = boost::python::default_call_policies; keyword_range = std::pair]’ 63 | return detail::make_keyword_range_function( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 64 | objects::make_holder | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 65 | ::template apply::execute | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 66 | , policies | ~~~~~~~~~~ 67 | , kw); | ~~~~~ /usr/include/boost/python/init.hpp:310:66: required from ‘void boost::python::detail::def_init_aux(ClassT&, const Signature&, NArgs, const CallPoliciesT&, const char*, const keyword_range&) [with ClassT = boost::python::class_, not_specified, not_specified, not_specified>; CallPoliciesT = boost::python::default_call_policies; Signature = boost::mpl::vector9, scitbx::af::shared, scitbx::af::shared, bool, const double&, const double&, const int&>; NArgs = boost::mpl::size, scitbx::af::shared, scitbx::af::shared, bool, const double&, const double&, const int&> >; keyword_range = std::pair]’ 310 | , detail::make_keyword_range_constructor( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 311 | policies | ~~~~~~~~ 312 | , keywords_ | ~~~~~~~~~~~ 313 | , (typename ClassT::metadata::holder*)0 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 314 | ) | ~ /usr/include/boost/python/init.hpp:377:31: required from ‘static void boost::python::detail::define_class_init_helper<0>::apply(ClassT&, const CallPoliciesT&, const Signature&, NArgs, const char*, const boost::python::detail::keyword_range&) [with ClassT = boost::python::class_, boost::python::detail::not_specified, boost::python::detail::not_specified, boost::python::detail::not_specified>; CallPoliciesT = boost::python::default_call_policies; Signature = boost::mpl::vector9, scitbx::af::shared, scitbx::af::shared, bool, const double&, const double&, const int&>; NArgs = boost::mpl::size, scitbx::af::shared, scitbx::af::shared, bool, const double&, const double&, const int&> >; boost::python::detail::keyword_range = std::pair]’ 377 | detail::def_init_aux(cl, args, NArgs(), policies, doc, keywords); | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/boost/python/init.hpp:149:67: required from ‘void boost::python::init_base::visit(classT&) const [with classT = boost::python::class_, boost::python::detail::not_specified, boost::python::detail::not_specified, boost::python::detail::not_specified>; DerivedT = boost::python::init, scitbx::af::shared, scitbx::af::shared, bool, const double&, const double&, const int&, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_>]’ 149 | detail::define_class_init_helper::apply( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 150 | cl | ~~ 151 | , derived().call_policies() | ~~~~~~~~~~~~~~~~~~~~~~~~~~~ 152 | , signature() | ~~~~~~~~~~~~~ 153 | , n_arguments() | ~~~~~~~~~~~~~~~ 154 | , derived().doc_string() | ~~~~~~~~~~~~~~~~~~~~~~~~ 155 | , derived().keywords()); | ~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/boost/python/def_visitor.hpp:31:34: required from ‘static void boost::python::def_visitor_access::visit(const V&, classT&) [with V = boost::python::def_visitor, scitbx::af::shared, scitbx::af::shared, bool, const double&, const double&, const int&, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_> >; classT = boost::python::class_, boost::python::detail::not_specified, boost::python::detail::not_specified, boost::python::detail::not_specified>]’ 31 | v.derived_visitor().visit(c); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /usr/include/boost/python/def_visitor.hpp:67:34: required from ‘void boost::python::def_visitor::visit(classT&) const [with classT = boost::python::class_, boost::python::detail::not_specified, boost::python::detail::not_specified, boost::python::detail::not_specified>; DerivedVisitor = boost::python::init, scitbx::af::shared, scitbx::af::shared, bool, const double&, const double&, const int&, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_>]’ 67 | def_visitor_access::visit(*this, c); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /usr/include/boost/python/class.hpp:221:22: required from ‘boost::python::class_::self& boost::python::class_::def(const boost::python::def_visitor&) [with Derived = boost::python::init, scitbx::af::shared, scitbx::af::shared, bool, const double&, const double&, const int&, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_>; W = scitbx::lbfgsb::minimizer; X1 = boost::python::detail::not_specified; X2 = boost::python::detail::not_specified; X3 = boost::python::detail::not_specified; self = boost::python::class_, boost::python::detail::not_specified, boost::python::detail::not_specified, boost::python::detail::not_specified>]’ 221 | visitor.visit(*this); | ~~~~~~~~~~~~~^~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/boost_python/lbfgsb_ext.cpp:20:13: required from ‘static void scitbx::lbfgsb::{anonymous}::minimizer_wrappers::wrap() [with FloatType = double]’ 19 | class_("minimizer", no_init) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 20 | .def(init, | ~~~~~~~~~~~~~~~~~~~~~~ 23 | af::shared, | ~~~~~~~~~~~~~~~~~~~~~~ 24 | af::shared, | ~~~~~~~~~~~~~~~~ 25 | bool, | ~~~~~ 26 | FloatType const&, | ~~~~~~~~~~~~~~~~~ 27 | FloatType const&, | ~~~~~~~~~~~~~~~~~ 28 | int const&>()) | ~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/boost_python/lbfgsb_ext.cpp:112:37: required from here 112 | minimizer_wrappers::wrap(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb.h:118:32: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] 118 | SCITBX_ASSERT(l.size() == n); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb.h:118:9: note: in expansion of macro ‘SCITBX_ASSERT’ 118 | SCITBX_ASSERT(l.size() == n); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb.h:119:32: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] 119 | SCITBX_ASSERT(u.size() == n); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb.h:119:9: note: in expansion of macro ‘SCITBX_ASSERT’ 119 | SCITBX_ASSERT(u.size() == n); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb.h:120:34: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] 120 | SCITBX_ASSERT(nbd.size() == n); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb.h:120:9: note: in expansion of macro ‘SCITBX_ASSERT’ 120 | SCITBX_ASSERT(nbd.size() == n); | ^~~~~~~~~~~~~ g++ -o scitbx/linalg/boost_python/svd.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/linalg/boost_python/svd.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/scitbx_lbfgsb_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_lbfgsb_ext.so.0 scitbx/lbfgsb/boost_python/lbfgsb_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_python313 -lm -lboost_timer Create symlinks for: 'lib/scitbx_lbfgsb_ext.so.0.0.1' 'lib/scitbx_lbfgsb_ext.so.0'->'lib/scitbx_lbfgsb_ext.so.0.0.1' 'lib/scitbx_lbfgsb_ext.so'->'lib/scitbx_lbfgsb_ext.so.0.0.1' g++ -o scitbx/linalg/boost_python/eigensystem.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/linalg/boost_python/eigensystem.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/scitbx_lbfgs_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_lbfgs_ext.so.0 scitbx/lbfgs/ext.o scitbx/lbfgs/lbfgs_fem.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/scitbx_lbfgs_ext.so.0.0.1' 'lib/scitbx_lbfgs_ext.so.0'->'lib/scitbx_lbfgs_ext.so.0.0.1' 'lib/scitbx_lbfgs_ext.so'->'lib/scitbx_lbfgs_ext.so.0.0.1' g++ -o scitbx/linalg/boost_python/lapack_fem_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/linalg/boost_python/lapack_fem_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/scitbx_array_family_shared_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_array_family_shared_ext.so.0 scitbx/array_family/boost_python/shared_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_python313 -lm -lboost_numpy313 Create symlinks for: 'lib/scitbx_array_family_shared_ext.so.0.0.1' 'lib/scitbx_array_family_shared_ext.so.0'->'lib/scitbx_array_family_shared_ext.so.0.0.1' 'lib/scitbx_array_family_shared_ext.so'->'lib/scitbx_array_family_shared_ext.so.0.0.1' g++ -o scitbx/lstbx/boost_python/lstbx_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lstbx/boost_python/lstbx_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/lstbx/boost_python/normal_equations.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lstbx/boost_python/normal_equations.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/math_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/boost_python/math_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/basic_statistics.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/boost_python/basic_statistics.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/mat3.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/sym_mat3.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/linalg/boost_python/lapack_fem_bpl.cpp:5: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/linalg/boost_python/lapack_fem_bpl.cpp: In function ‘int scitbx::lapack::boost_python::dsyev_wrapper(const std::string&, const std::string&, const scitbx::af::ref >&, const scitbx::af::ref&, bool)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/linalg/boost_python/lapack_fem_bpl.cpp:246:28: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 246 | SCITBX_ASSERT(w.size() == n); | ~~~~~~~~~^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/linalg/boost_python/lapack_fem_bpl.cpp:246:5: note: in expansion of macro ‘SCITBX_ASSERT’ 246 | SCITBX_ASSERT(w.size() == n); | ^~~~~~~~~~~~~ g++ -o scitbx/math/boost_python/gaussian.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/boost_python/gaussian.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/golay.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/boost_python/golay.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/scitbx_linalg_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_linalg_ext.so.0 scitbx/linalg/boost_python/linalg_ext.o scitbx/linalg/boost_python/matrix.o scitbx/linalg/boost_python/cholesky.o scitbx/linalg/boost_python/householder.o scitbx/linalg/boost_python/svd.o scitbx/linalg/boost_python/eigensystem.o scitbx/linalg/boost_python/lapack_fem_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/scitbx_linalg_ext.so.0.0.1' 'lib/scitbx_linalg_ext.so.0'->'lib/scitbx_linalg_ext.so.0.0.1' 'lib/scitbx_linalg_ext.so'->'lib/scitbx_linalg_ext.so.0.0.1' g++ -o scitbx/math/boost_python/minimum_covering_sphere.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/boost_python/minimum_covering_sphere.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/principal_axes_of_inertia.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/boost_python/principal_axes_of_inertia.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/row_echelon.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/boost_python/row_echelon.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/tensor_rank_2.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/boost_python/tensor_rank_2.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/chebyshev.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/boost_python/chebyshev.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/scitbx_lstbx_normal_equations_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_lstbx_normal_equations_ext.so.0 scitbx/lstbx/boost_python/lstbx_ext.o scitbx/lstbx/boost_python/normal_equations.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_python313 -lm g++ -o scitbx/math/boost_python/icosahedron.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/boost_python/icosahedron.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ Create symlinks for: 'lib/scitbx_lstbx_normal_equations_ext.so.0.0.1' 'lib/scitbx_lstbx_normal_equations_ext.so.0'->'lib/scitbx_lstbx_normal_equations_ext.so.0.0.1' 'lib/scitbx_lstbx_normal_equations_ext.so'->'lib/scitbx_lstbx_normal_equations_ext.so.0.0.1' g++ -o scitbx/math/boost_python/slatec.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/boost_python/slatec.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/line_search.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/boost_python/line_search.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/r3_rotation.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/boost_python/r3_rotation.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/resample.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/boost_python/resample.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/quadrature.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/boost_python/quadrature.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/unimodular_generator.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/boost_python/unimodular_generator.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/halton.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/boost_python/halton.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/least_squares_plane.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/boost_python/least_squares_plane.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/continued_fraction.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/boost_python/continued_fraction.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/numeric_limits.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/boost_python/numeric_limits.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/distributions.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/boost_python/distributions.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/exp_functions.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/boost_python/exp_functions.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/zernike.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/boost_python/zernike.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/zernike_moments.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/boost_python/zernike_moments.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/2d_zernike_moments.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/boost_python/2d_zernike_moments.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/weighted_covariance.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/boost_python/weighted_covariance.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/rotation.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/boost_python/rotation.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/interpolation.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/boost_python/interpolation.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/tetrahedron.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/boost_python/tetrahedron.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/angle_derivative.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/boost_python/angle_derivative.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/minpack/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/minpack/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/r3_utils_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/r3_utils_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/minpack/raw.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/minpack/levenberg_marquardt.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/minpack/ext.cpp:4: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/minpack/levenberg_marquardt.h: In member function ‘void scitbx::minpack::levenberg_marquardt::process_fvec(const scitbx::af::const_ref&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/minpack/levenberg_marquardt.h:80:35: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 80 | SCITBX_ASSERT(fvec.size() == m); | ~~~~~~~~~~~~^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/minpack/levenberg_marquardt.h:80:9: note: in expansion of macro ‘SCITBX_ASSERT’ 80 | SCITBX_ASSERT(fvec.size() == m); | ^~~~~~~~~~~~~ g++ -o scitbx/random/boost_python/random_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/random/boost_python/random_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/random/boost_python/basic_distributions.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/random/boost_python/basic_distributions.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/rigid_body/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/rigid_body/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny_plain.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/vec3.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/mat3.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/rotr3.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/rigid_body/spatial_lib.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/rigid_body/featherstone.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/rigid_body/tardy.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/rigid_body/ext.cpp:14: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h: In instantiation of ‘scitbx::af::tiny::tiny(const OtherElementType*, const OtherElementType*) [with OtherElementType = double; ElementType = double; long unsigned int N = 4]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/rigid_body/joint_lib.h:361:21: required from ‘scitbx::rotr3 scitbx::rigid_body::joint_lib::six_dof_aja_simplified(const scitbx::vec3&, const scitbx::af::const_ref&) [with FloatType = double]’ 361 | af::tiny qe(&q[0], &q[4]); | ^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/rigid_body/ext.cpp:24:49: required from here 24 | result = joint_lib::six_dof_aja_simplified(center_of_mass, q); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/detail/tiny_helpers.h:148:20: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘scitbx::af::tiny_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 148 | if (last - first != this->size()) throw_range_error(); \ | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:30:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_TINY_CONVENIENCE_CONSTRUCTORS’ 30 | SCITBX_ARRAY_FAMILY_TINY_CONVENIENCE_CONSTRUCTORS(tiny) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/accessors/flex_grid.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa_matrix.h:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/rigid_body/spatial_lib.h:5: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small_plain.h: In instantiation of ‘scitbx::af::small_plain::small_plain(const ElementType*, const ElementType*) [with ElementType = double; long unsigned int N = 6]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small.h:44:33: required from ‘scitbx::af::small::small(const ElementType*, const ElementType*) [with ElementType = double; long unsigned int N = 6]’ 44 | : base_class(first, last) | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/rigid_body/featherstone.h:683:31: required from ‘scitbx::af::shared > scitbx::rigid_body::featherstone::system_model::inverse_dynamics(const scitbx::af::const_ref >&, const scitbx::af::const_ref >&, const scitbx::af::const_ref&) [with FloatType = double]’ 683 | tau_array[ib] = af::small(f[ib].begin(), f[ib].end()); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/rigid_body/featherstone.h:705:21: required from ‘scitbx::af::shared scitbx::rigid_body::featherstone::system_model::inverse_dynamics_packed(const scitbx::af::const_ref&, const scitbx::af::const_ref&, const scitbx::af::const_ref&) [with FloatType = double]’ 705 | tau_array = inverse_dynamics( | ^~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/rigid_body/ext.cpp:120:46: required from here 120 | .def("inverse_dynamics_packed", &wt::inverse_dynamics_packed, ( | ^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small_plain.h:59:15: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘long int’ [-Wsign-compare] 59 | if (N < last - first) throw_range_error(); | ~~^~~~~~~~~~~~~~ g++ -o scitbx/sparse/boost_python/vector.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/sparse/boost_python/vector.cpp g++ -o lib/scitbx_r3_utils_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_r3_utils_ext.so.0 scitbx/r3_utils_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_python313 -lm cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ Create symlinks for: 'lib/scitbx_r3_utils_ext.so.0.0.1' 'lib/scitbx_r3_utils_ext.so.0'->'lib/scitbx_r3_utils_ext.so.0.0.1' 'lib/scitbx_r3_utils_ext.so'->'lib/scitbx_r3_utils_ext.so.0.0.1' In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/mat3.h:5: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/rigid_body/tardy.h: In instantiation of ‘scitbx::af::shared > > scitbx::rigid_body::tardy::construct_bodies(const scitbx::af::const_ref >&, const scitbx::af::const_ref&, const boost::python::api::object&, const FloatType&) [with FloatType = double]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/rigid_body/tardy.h:203:54: required from ‘scitbx::rigid_body::tardy::model::model(const boost::python::api::object&, const scitbx::af::shared >&, const scitbx::af::shared&, const boost::python::api::object&, const boost::python::api::object&, const ft&) [with FloatType = double; ft = double]’ 203 | featherstone::system_model(construct_bodies( | ~~~~~~~~~~~~~~~~^ 204 | sites_.const_ref(), | ~~~~~~~~~~~~~~~~~~~ 205 | masses_.const_ref(), | ~~~~~~~~~~~~~~~~~~~~ 206 | tardy_tree_.attr("cluster_manager"), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 207 | near_singular_hinges_angular_tolerance_deg_)), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/boost/python/object/value_holder.hpp:131:11: required from ‘boost::python::objects::value_holder::value_holder(PyObject*, A0, A1, A2, A3, A4, A5) [with A0 = boost::python::objects::reference_to_value; A1 = boost::python::objects::reference_to_value >&>; A2 = boost::python::objects::reference_to_value&>; A3 = boost::python::objects::reference_to_value; A4 = boost::python::objects::reference_to_value; A5 = boost::python::objects::reference_to_value; Value = scitbx::rigid_body::tardy::model<>; PyObject = _object]’ 131 | PyObject* self BOOST_PP_COMMA_IF(N) BOOST_PP_ENUM_BINARY_PARAMS_Z(1, N, A, a)) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 132 | : m_held( | ~~~~~~~~~ 133 | BOOST_PP_REPEAT_1ST(N, BOOST_PYTHON_UNFORWARD_LOCAL, nil) | ~ /usr/include/boost/python/object/make_holder.hpp:95:18: required from ‘static void boost::python::objects::make_holder<6>::apply::execute(PyObject*, t0, t1, t2, t3, t4, t5) [with Holder = boost::python::objects::value_holder >; ArgList = boost::mpl::joint_view >&, const scitbx::af::shared&, const boost::python::api::object&, const boost::python::api::object&, boost::python::optional, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_> >, boost::python::optional >; PyObject = _object; t0 = const boost::python::api::object&; t1 = const scitbx::af::shared >&; t2 = const scitbx::af::shared&; t3 = const boost::python::api::object&; t4 = const boost::python::api::object&; t5 = const double&]’ 95 | try { | ~^ 96 | (new (memory) Holder( | ~~~~~~~~~~~~~~~~~~~~~ /usr/include/boost/python/detail/make_keyword_range_fn.hpp:63:47: required from ‘boost::python::api::object boost::python::detail::make_keyword_range_constructor(const CallPolicies&, const keyword_range&, Holder*, ArgList*, Arity*) [with ArgList = boost::mpl::joint_view >&, const scitbx::af::shared&, const boost::python::api::object&, const boost::python::api::object&, boost::python::optional, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_> >, boost::python::optional >; Arity = boost::mpl::size >&, const scitbx::af::shared&, const boost::python::api::object&, const boost::python::api::object&, boost::python::optional, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_> >, boost::python::optional > >; Holder = boost::python::objects::value_holder >; CallPolicies = boost::python::default_call_policies; keyword_range = std::pair]’ 63 | return detail::make_keyword_range_function( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 64 | objects::make_holder | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 65 | ::template apply::execute | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 66 | , policies | ~~~~~~~~~~ 67 | , kw); | ~~~~~ /usr/include/boost/python/init.hpp:310:66: required from ‘void boost::python::detail::def_init_aux(ClassT&, const Signature&, NArgs, const CallPoliciesT&, const char*, const keyword_range&) [with ClassT = boost::python::class_, boost::python::bases >, boost::noncopyable_::noncopyable>; CallPoliciesT = boost::python::default_call_policies; Signature = boost::mpl::joint_view >&, const scitbx::af::shared&, const boost::python::api::object&, const boost::python::api::object&, boost::python::optional, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_> >, boost::python::optional >; NArgs = boost::mpl::size >&, const scitbx::af::shared&, const boost::python::api::object&, const boost::python::api::object&, boost::python::optional, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_> >, boost::python::optional > >; keyword_range = std::pair]’ 310 | , detail::make_keyword_range_constructor( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 311 | policies | ~~~~~~~~ 312 | , keywords_ | ~~~~~~~~~~~ 313 | , (typename ClassT::metadata::holder*)0 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 314 | ) | ~ /usr/include/boost/python/init.hpp:344:31: required from ‘static void boost::python::detail::define_class_init_helper::apply(ClassT&, const CallPoliciesT&, const Signature&, NArgs, const char*, boost::python::detail::keyword_range) [with ClassT = boost::python::class_, boost::python::bases >, boost::noncopyable_::noncopyable>; CallPoliciesT = boost::python::default_call_policies; Signature = boost::mpl::joint_view >&, const scitbx::af::shared&, const boost::python::api::object&, const boost::python::api::object&, boost::python::optional, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_> >, boost::python::optional >; NArgs = boost::mpl::size >&, const scitbx::af::shared&, const boost::python::api::object&, const boost::python::api::object&, boost::python::optional, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_> >, boost::python::optional > >; int NDefaults = 1; boost::python::detail::keyword_range = std::pair]’ 344 | detail::def_init_aux(cl, args, NArgs(), policies, doc, keywords); | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/boost/python/init.hpp:149:67: required from ‘void boost::python::init_base::visit(classT&) const [with classT = boost::python::class_, boost::python::bases >, boost::noncopyable_::noncopyable>; DerivedT = boost::python::init >&, const scitbx::af::shared&, const boost::python::api::object&, const boost::python::api::object&, boost::python::optional >]’ 149 | detail::define_class_init_helper::apply( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 150 | cl | ~~ 151 | , derived().call_policies() | ~~~~~~~~~~~~~~~~~~~~~~~~~~~ 152 | , signature() | ~~~~~~~~~~~~~ 153 | , n_arguments() | ~~~~~~~~~~~~~~~ 154 | , derived().doc_string() | ~~~~~~~~~~~~~~~~~~~~~~~~ 155 | , derived().keywords()); | ~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/boost/python/def_visitor.hpp:31:34: required from ‘static void boost::python::def_visitor_access::visit(const V&, classT&) [with V = boost::python::def_visitor >&, const scitbx::af::shared&, const boost::python::api::object&, const boost::python::api::object&, boost::python::optional > >; classT = boost::python::class_, boost::python::bases >, boost::noncopyable_::noncopyable>]’ 31 | v.derived_visitor().visit(c); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /usr/include/boost/python/def_visitor.hpp:67:34: required from ‘void boost::python::def_visitor::visit(classT&) const [with classT = boost::python::class_, boost::python::bases >, boost::noncopyable_::noncopyable>; DerivedVisitor = boost::python::init >&, const scitbx::af::shared&, const boost::python::api::object&, const boost::python::api::object&, boost::python::optional >]’ 67 | def_visitor_access::visit(*this, c); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /usr/include/boost/python/class.hpp:221:22: required from ‘boost::python::class_::self& boost::python::class_::def(const boost::python::def_visitor&) [with Derived = boost::python::init >&, const scitbx::af::shared&, const boost::python::api::object&, const boost::python::api::object&, boost::python::optional >; W = scitbx::rigid_body::tardy::model<>; X1 = boost::python::bases >; X2 = boost::noncopyable_::noncopyable; X3 = boost::python::detail::not_specified; self = boost::python::class_, boost::python::bases >, boost::noncopyable_::noncopyable>]’ 221 | visitor.visit(*this); | ~~~~~~~~~~~~~^~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/rigid_body/ext.cpp:151:13: required from here 146 | class_ >, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 148 | boost::noncopyable | ~~~~~~~~~~~~~~~~~~ 149 | >("tardy_model", no_init) | ~~~~~~~~~~~~~~~~~~~~~~~~~ 150 | .enable_pickling() | ~~~~~~~~~~~~~~~~~~ 151 | .def(init< | ~~~~^~~~~~ 152 | object const&, | ~~~~~~~~~~~~~~ 153 | af::shared > const&, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 154 | af::shared const&, | ~~~~~~~~~~~~~~~~~~~~~~ 155 | object const&, | ~~~~~~~~~~~~~~ 156 | object const&, | ~~~~~~~~~~~~~~ 157 | optional >(( | ~~~~~~~~~~~~~~~~~~~~~~~ 158 | arg("labels"), | ~~~~~~~~~~~~~~ 159 | arg("sites"), | ~~~~~~~~~~~~~ 160 | arg("masses"), | ~~~~~~~~~~~~~~ 161 | arg("tardy_tree"), | ~~~~~~~~~~~~~~~~~~ 162 | arg("potential_obj"), | ~~~~~~~~~~~~~~~~~~~~~ 163 | arg("near_singular_hinges_angular_tolerance_deg")=5))) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/rigid_body/tardy.h:163:36: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 163 | SCITBX_ASSERT(body->parent < nc); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/rigid_body/tardy.h:163:9: note: in expansion of macro ‘SCITBX_ASSERT’ 163 | SCITBX_ASSERT(body->parent < nc); | ^~~~~~~~~~~~~ g++ -o scitbx/sparse/boost_python/matrix.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/sparse/boost_python/matrix.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h: In instantiation of ‘scitbx::af::tiny::tiny(const OtherElementType*, const OtherElementType*) [with OtherElementType = double; ElementType = double; long unsigned int N = 1]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/rigid_body/joint_lib.h:648:13: required from ‘boost::shared_ptr > scitbx::rigid_body::joint_lib::revolute::new_q(const scitbx::af::const_ref&) const [with FloatType = double]’ 648 | af::tiny(q.begin(), q.end()))); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/rigid_body/joint_lib.h:643:5: required from here 643 | new_q( | ^~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/detail/tiny_helpers.h:148:20: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘scitbx::af::tiny_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 148 | if (last - first != this->size()) throw_range_error(); \ | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:30:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_TINY_CONVENIENCE_CONSTRUCTORS’ 30 | SCITBX_ARRAY_FAMILY_TINY_CONVENIENCE_CONSTRUCTORS(tiny) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h: In instantiation of ‘scitbx::af::tiny::tiny(const OtherElementType*, const OtherElementType*) [with OtherElementType = double; ElementType = double; long unsigned int N = 12]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/rigid_body/joint_lib.h:45:16: required from ‘scitbx::af::tiny scitbx::rigid_body::joint_lib::rbda_eq_4_13(const scitbx::af::tiny&) [with FloatType = double]’ 45 | return af::tiny(coeffs, coeffs+4*3) * ft(0.5); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/rigid_body/joint_lib.h:279:21: required from ‘boost::shared_ptr > scitbx::rigid_body::joint_lib::six_dof::time_step_position(const scitbx::af::const_ref&, const ft&) const [with FloatType = double; ft = double]’ 279 | rbda_eq_4_13(unit_quaternion), w_body_frame); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/rigid_body/joint_lib.h:271:5: required from here 271 | time_step_position( | ^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/detail/tiny_helpers.h:148:20: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘scitbx::af::tiny_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 148 | if (last - first != this->size()) throw_range_error(); \ | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:30:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_TINY_CONVENIENCE_CONSTRUCTORS’ 30 | SCITBX_ARRAY_FAMILY_TINY_CONVENIENCE_CONSTRUCTORS(tiny) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h: In instantiation of ‘scitbx::af::tiny::tiny(const OtherElementType*, const OtherElementType*) [with OtherElementType = double; ElementType = double; long unsigned int N = 16]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/rigid_body/joint_lib.h:79:16: required from ‘scitbx::af::tiny scitbx::rigid_body::joint_lib::d_unit_quaternion_d_qe_matrix(const scitbx::af::tiny&) [with FloatType = double]’ 79 | return af::tiny(coeffs, coeffs+4*4) / n3; | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/rigid_body/joint_lib.h:317:58: required from ‘scitbx::af::small scitbx::rigid_body::joint_lib::six_dof::tau_as_d_e_pot_d_q(const scitbx::af::small&) const [with FloatType = double]’ 317 | af::tiny d = d_unit_quaternion_d_qe_matrix(qe); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/rigid_body/joint_lib.h:313:5: required from here 313 | tau_as_d_e_pot_d_q( | ^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/detail/tiny_helpers.h:148:20: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘scitbx::af::tiny_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 148 | if (last - first != this->size()) throw_range_error(); \ | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny.h:30:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_TINY_CONVENIENCE_CONSTRUCTORS’ 30 | SCITBX_ARRAY_FAMILY_TINY_CONVENIENCE_CONSTRUCTORS(tiny) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small_plain.h: In instantiation of ‘scitbx::af::small_plain::small_plain(const ElementType*, const ElementType*) [with ElementType = double; long unsigned int N = 7]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small.h:44:33: required from ‘scitbx::af::small::small(const ElementType*, const ElementType*) [with ElementType = double; long unsigned int N = 7]’ 44 | : base_class(first, last) | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/rigid_body/joint_lib.h:324:24: required from ‘scitbx::af::small scitbx::rigid_body::joint_lib::six_dof::tau_as_d_e_pot_d_q(const scitbx::af::small&) const [with FloatType = double]’ 324 | af::small result(cn.begin(), cn.end()); | ^~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/rigid_body/joint_lib.h:313:5: required from here 313 | tau_as_d_e_pot_d_q( | ^~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small_plain.h:59:15: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘long int’ [-Wsign-compare] 59 | if (N < last - first) throw_range_error(); | ~~^~~~~~~~~~~~~~ g++ -o lib/scitbx_minpack_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_minpack_ext.so.0 scitbx/minpack/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lscitbx_minpack -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/scitbx_minpack_ext.so.0.0.1' 'lib/scitbx_minpack_ext.so.0'->'lib/scitbx_minpack_ext.so.0.0.1' 'lib/scitbx_minpack_ext.so'->'lib/scitbx_minpack_ext.so.0.0.1' g++ -o scitbx/sparse/boost_python/approx_equal.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/sparse/boost_python/approx_equal.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/scitbx_math_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_math_ext.so.0 scitbx/math/boost_python/math_ext.o scitbx/math/boost_python/basic_statistics.o scitbx/math/boost_python/gaussian.o scitbx/math/boost_python/golay.o scitbx/math/boost_python/minimum_covering_sphere.o scitbx/math/boost_python/principal_axes_of_inertia.o scitbx/math/boost_python/row_echelon.o scitbx/math/boost_python/tensor_rank_2.o scitbx/math/boost_python/chebyshev.o scitbx/math/boost_python/icosahedron.o scitbx/math/boost_python/slatec.o scitbx/math/boost_python/line_search.o scitbx/math/boost_python/r3_rotation.o scitbx/math/boost_python/resample.o scitbx/math/boost_python/quadrature.o scitbx/math/boost_python/unimodular_generator.o scitbx/math/boost_python/halton.o scitbx/math/boost_python/least_squares_plane.o scitbx/math/boost_python/continued_fraction.o scitbx/math/boost_python/numeric_limits.o scitbx/math/boost_python/distributions.o scitbx/math/boost_python/exp_functions.o scitbx/math/boost_python/zernike.o scitbx/math/boost_python/zernike_moments.o scitbx/math/boost_python/2d_zernike_moments.o scitbx/math/boost_python/weighted_covariance.o scitbx/math/boost_python/rotation.o scitbx/math/boost_python/interpolation.o scitbx/math/boost_python/tetrahedron.o scitbx/math/boost_python/angle_derivative.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lscitbx_slatec -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/scitbx_math_ext.so.0.0.1' 'lib/scitbx_math_ext.so.0'->'lib/scitbx_math_ext.so.0.0.1' 'lib/scitbx_math_ext.so'->'lib/scitbx_math_ext.so.0.0.1' g++ -o scitbx/sparse/boost_python/random.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/sparse/boost_python/random.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa_plain.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/versa_matrix.h:4: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h: In constructor ‘scitbx::af::shared_plain::shared_plain(const size_type&) [with ElementType = scitbx::vec3]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:132:34: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/15/memory:71, from /usr/include/boost/config/no_tr1/memory.hpp:21, from /usr/include/boost/get_pointer.hpp:14, from /usr/include/boost/python/object/pointer_holder.hpp:11, from /usr/include/boost/python/to_python_indirect.hpp:10, from /usr/include/boost/python/converter/arg_to_python.hpp:10, from /usr/include/boost/python/call.hpp:15, from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object.hpp:9, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/array_as_list.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/rigid_body/ext.cpp:3: /usr/include/c++/15/bits/stl_uninitialized.h:526:5: note: by argument 3 of type ‘const scitbx::vec3&’ to ‘_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = scitbx::vec3*; _Size = long unsigned int; _Tp = scitbx::vec3]’ declared here 526 | uninitialized_fill_n(_ForwardIterator __first, _Size __n, const _Tp& __x) | ^~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:132:48: note: ‘’ declared here 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); | ^~~~~~~~~~~~~ g++ -o scitbx/sparse/boost_python/lu_factorization.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/sparse/boost_python/lu_factorization.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h: In constructor ‘scitbx::af::shared_plain::shared_plain(const size_type&) [with ElementType = scitbx::af::tiny]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:132:34: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/15/bits/stl_uninitialized.h:526:5: note: by argument 3 of type ‘const scitbx::af::tiny&’ to ‘_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = scitbx::af::tiny*; _Size = long unsigned int; _Tp = scitbx::af::tiny]’ declared here 526 | uninitialized_fill_n(_ForwardIterator __first, _Size __n, const _Tp& __x) | ^~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:132:48: note: ‘’ declared here 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); | ^~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/shared_plain.h:307: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/detail/push_back_etc.h: In member function ‘void scitbx::af::shared_plain::resize(const size_type&) [with ElementType = scitbx::af::tiny]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/detail/push_back_etc.h:175:15: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] 175 | resize(new_size, ElementType()); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/detail/push_back_etc.h:165:12: note: by argument 3 of type ‘const scitbx::af::tiny&’ to ‘void scitbx::af::shared_plain::resize(const size_type&, const ElementType&) [with ElementType = scitbx::af::tiny]’ declared here 165 | void resize(size_type const& new_size, ElementType const& x) { | ^~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/detail/push_back_etc.h:175:26: note: ‘’ declared here 175 | resize(new_size, ElementType()); | ^~~~~~~~~~~~~ g++ -o lib/scitbx_random_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_random_ext.so.0 scitbx/random/boost_python/random_ext.o scitbx/random/boost_python/basic_distributions.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/scitbx_random_ext.so.0.0.1' 'lib/scitbx_random_ext.so.0'->'lib/scitbx_random_ext.so.0.0.1' 'lib/scitbx_random_ext.so'->'lib/scitbx_random_ext.so.0.0.1' g++ -o scitbx/sparse/boost_python/sparse_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/sparse/boost_python/sparse_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/stl/map_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/stl/map_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/stl/set_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/stl/set_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/stl/vector_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/stl/vector_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/suffixtree/boost_python/suffixtree_shared_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/suffixtree/boost_python/suffixtree_shared_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/stl/set_ext.cpp:1: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/stl/set_wrapper.h: In static member function ‘static void scitbx::stl::boost_python::set_wrapper::wrap(const std::string&)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/stl/set_wrapper.h:52:28: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 52 | bp::class_ >(python_name.c_str()) | ^~~~~~~~ In file included from /usr/include/c++/15/memory:80, from /usr/include/boost/config/no_tr1/memory.hpp:21, from /usr/include/boost/get_pointer.hpp:14, from /usr/include/boost/python/object/pointer_holder.hpp:11, from /usr/include/boost/python/to_python_indirect.hpp:10, from /usr/include/boost/python/converter/arg_to_python.hpp:10, from /usr/include/boost/python/call.hpp:15, from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object/class.hpp:9, from /usr/include/boost/python/class.hpp:13, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/stl/set_wrapper.h:4: /usr/include/c++/15/bits/unique_ptr.h:58:28: note: declared here 58 | template class auto_ptr; | ^~~~~~~~ In file included from /usr/include/boost/assert.hpp:64, from /usr/include/boost/smart_ptr/shared_ptr.hpp:23, from /usr/include/boost/shared_ptr.hpp:17, from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, from /usr/include/boost/python/converter/arg_to_python.hpp:15: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = std::set, std::allocator >; ConversionPolicy = scitbx::boost_python::container_conversions::set_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = std::set, std::allocator >; ConversionPolicy = scitbx::boost_python::container_conversions::set_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/stl/set_wrapper.h:68:52: required from ‘static void scitbx::stl::boost_python::set_wrapper::wrap(const std::string&) [with ElementType = unsigned int; std::string = std::__cxx11::basic_string]’ 68 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 69 | w_t, scitbx::boost_python::container_conversions::set_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/stl/set_ext.cpp:9:32: required from here 9 | set_wrapper::wrap("unsigned"); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = std::set, std::less >, std::allocator > >; ConversionPolicy = scitbx::boost_python::container_conversions::set_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = std::set, std::less >, std::allocator > >; ConversionPolicy = scitbx::boost_python::container_conversions::set_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/stl/set_wrapper.h:68:52: required from ‘static void scitbx::stl::boost_python::set_wrapper::wrap(const std::string&) [with ElementType = std::__cxx11::basic_string; std::string = std::__cxx11::basic_string]’ 68 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 69 | w_t, scitbx::boost_python::container_conversions::set_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/stl/set_ext.cpp:10:35: required from here 10 | set_wrapper::wrap("stl_string"); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ g++ -o lib/scitbx_rigid_body_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_rigid_body_ext.so.0 scitbx/rigid_body/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/scitbx_rigid_body_ext.so.0.0.1' 'lib/scitbx_rigid_body_ext.so.0'->'lib/scitbx_rigid_body_ext.so.0.0.1' 'lib/scitbx_rigid_body_ext.so'->'lib/scitbx_rigid_body_ext.so.0.0.1' g++ -o scitbx/suffixtree/boost_python/suffixtree_single_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/suffixtree/boost_python/suffixtree_single_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/scitbx_sparse_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_sparse_ext.so.0 scitbx/sparse/boost_python/vector.o scitbx/sparse/boost_python/matrix.o scitbx/sparse/boost_python/approx_equal.o scitbx/sparse/boost_python/random.o scitbx/sparse/boost_python/lu_factorization.o scitbx/sparse/boost_python/sparse_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_python313 -lm In file included from /usr/include/boost/assert.hpp:64, from /usr/include/boost/smart_ptr/shared_ptr.hpp:23, from /usr/include/boost/shared_ptr.hpp:17, from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, from /usr/include/boost/python/converter/arg_to_python.hpp:15, from /usr/include/boost/python/call.hpp:15, from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object/class.hpp:9, from /usr/include/boost/python/class.hpp:13, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/stl/vector_wrapper.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/stl/vector_ext.cpp:2: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = std::vector >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = std::vector >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/stl/vector_wrapper.h:121:52: required from ‘static void scitbx::stl::boost_python::vector_wrapper::wrap(const std::string&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ 121 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 122 | w_t, | ~~~~ 123 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 124 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/stl/vector_ext.cpp:10:35: required from here 10 | vector_wrapper::wrap("unsigned"); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = std::vector >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = std::vector >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/stl/vector_wrapper.h:121:52: required from ‘static void scitbx::stl::boost_python::vector_wrapper::wrap(const std::string&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ 121 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 122 | w_t, | ~~~~ 123 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 124 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/stl/vector_ext.cpp:11:33: required from here 11 | vector_wrapper::wrap("double"); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = std::vector, std::allocator > >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = std::vector, std::allocator > >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/stl/vector_wrapper.h:121:52: required from ‘static void scitbx::stl::boost_python::vector_wrapper::wrap(const std::string&) [with ElementType = std::set; GetitemReturnValuePolicy = boost::python::return_internal_reference<>; std::string = std::__cxx11::basic_string]’ 121 | scitbx::boost_python::container_conversions::from_python_sequence< | ^~~~~~~~~~~~~~~~~~~~~ 122 | w_t, | ~~~~ 123 | scitbx::boost_python::container_conversions | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 124 | ::variable_capacity_policy>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/stl/vector_ext.cpp:14:50: required from here 14 | vector_wrapper, rir>::wrap("set_unsigned"); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ Create symlinks for: 'lib/scitbx_sparse_ext.so.0.0.1' 'lib/scitbx_sparse_ext.so.0'->'lib/scitbx_sparse_ext.so.0.0.1' 'lib/scitbx_sparse_ext.so'->'lib/scitbx_sparse_ext.so.0.0.1' g++ -o scitbx/suffixtree/boost_python/object_extensions.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/suffixtree/boost_python/object_extensions.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/scitbx_suffixtree_shared_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_suffixtree_shared_ext.so.0 scitbx/suffixtree/boost_python/suffixtree_shared_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/scitbx_suffixtree_shared_ext.so.0.0.1' 'lib/scitbx_suffixtree_shared_ext.so.0'->'lib/scitbx_suffixtree_shared_ext.so.0.0.1' 'lib/scitbx_suffixtree_shared_ext.so'->'lib/scitbx_suffixtree_shared_ext.so.0.0.1' g++ -o scitbx/wigner/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/wigner/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/scitbx_stl_set_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_stl_set_ext.so.0 scitbx/stl/set_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/scitbx_stl_set_ext.so.0.0.1' 'lib/scitbx_stl_set_ext.so.0'->'lib/scitbx_stl_set_ext.so.0.0.1' 'lib/scitbx_stl_set_ext.so'->'lib/scitbx_stl_set_ext.so.0.0.1' g++ -o smtbx/ab_initio/ab_initio_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/ab_initio/ab_initio_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/array_family/af_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/array_family/af_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/smtbx_ab_initio_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=smtbx_ab_initio_ext.so.0 smtbx/ab_initio/ab_initio_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/smtbx_ab_initio_ext.so.0.0.1' 'lib/smtbx_ab_initio_ext.so.0'->'lib/smtbx_ab_initio_ext.so.0.0.1' 'lib/smtbx_ab_initio_ext.so'->'lib/smtbx_ab_initio_ext.so.0.0.1' g++ -o smtbx/refinement/constraints/boost_python/affine.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints/boost_python/affine.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/smtbx_array_family_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=smtbx_array_family_ext.so.0 smtbx/array_family/af_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/smtbx_array_family_ext.so.0.0.1' 'lib/smtbx_array_family_ext.so.0'->'lib/smtbx_array_family_ext.so.0.0.1' 'lib/smtbx_array_family_ext.so'->'lib/smtbx_array_family_ext.so.0.0.1' g++ -o smtbx/refinement/constraints/boost_python/constraints_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints/boost_python/constraints_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/scitbx_wigner_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_wigner_ext.so.0 scitbx/wigner/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/scitbx_wigner_ext.so.0.0.1' 'lib/scitbx_wigner_ext.so.0'->'lib/scitbx_wigner_ext.so.0.0.1' 'lib/scitbx_wigner_ext.so'->'lib/scitbx_wigner_ext.so.0.0.1' g++ -o smtbx/refinement/constraints/boost_python/direction.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints/boost_python/direction.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/constraints/boost_python/geometrical_hydrogens.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints/boost_python/geometrical_hydrogens.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/scitbx_stl_vector_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_stl_vector_ext.so.0 scitbx/stl/vector_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/scitbx_stl_vector_ext.so.0.0.1' 'lib/scitbx_stl_vector_ext.so.0'->'lib/scitbx_stl_vector_ext.so.0.0.1' 'lib/scitbx_stl_vector_ext.so'->'lib/scitbx_stl_vector_ext.so.0.0.1' g++ -o smtbx/refinement/constraints/boost_python/independent_scalar_parameters.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints/boost_python/independent_scalar_parameters.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/scitbx_stl_map_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_stl_map_ext.so.0 scitbx/stl/map_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/scitbx_stl_map_ext.so.0.0.1' 'lib/scitbx_stl_map_ext.so.0'->'lib/scitbx_stl_map_ext.so.0.0.1' 'lib/scitbx_stl_map_ext.so'->'lib/scitbx_stl_map_ext.so.0.0.1' g++ -o smtbx/refinement/constraints/boost_python/occupancy.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints/boost_python/occupancy.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/constraints/boost_python/reparametrisation.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints/boost_python/reparametrisation.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/scitbx_suffixtree_single_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_suffixtree_single_ext.so.0 scitbx/suffixtree/boost_python/suffixtree_single_ext.o scitbx/suffixtree/boost_python/object_extensions.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/scitbx_suffixtree_single_ext.so.0.0.1' 'lib/scitbx_suffixtree_single_ext.so.0'->'lib/scitbx_suffixtree_single_ext.so.0.0.1' 'lib/scitbx_suffixtree_single_ext.so'->'lib/scitbx_suffixtree_single_ext.so.0.0.1' g++ -o smtbx/refinement/constraints/boost_python/rigid.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints/boost_python/rigid.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/constraints/boost_python/same_group.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints/boost_python/same_group.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/constraints/boost_python/scaled_adp.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints/boost_python/scaled_adp.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/constraints/boost_python/scatterer_parameters.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints/boost_python/scatterer_parameters.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/constraints/boost_python/shared.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints/boost_python/shared.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/constraints/boost_python/special_position.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints/boost_python/special_position.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/constraints/boost_python/symmetry_equivalent.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints/boost_python/symmetry_equivalent.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/constraints/boost_python/u_eq_dependent_u_iso.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints/boost_python/u_eq_dependent_u_iso.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/constraints/boost_python/u_iso_dependent_u_iso.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints/boost_python/u_iso_dependent_u_iso.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/boost_python/least_squares_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/boost_python/least_squares_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/boost_python/weighting_schemes.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/boost_python/weighting_schemes.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/boost_python/least_squares.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/boost_python/least_squares.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/restraints/boost_python/origin_fixing.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/restraints/boost_python/origin_fixing.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/restraints/boost_python/restraints_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/restraints/boost_python/restraints_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/stl/map_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/stl/map_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/structure_factors/direct/boost_python/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/structure_factors/direct/boost_python/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/structure_factors/direct/boost_python/standard_xray.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/structure_factors/direct/boost_python/standard_xray.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/smtbx_refinement_constraints_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=smtbx_refinement_constraints_ext.so.0 smtbx/refinement/constraints/boost_python/affine.o smtbx/refinement/constraints/boost_python/constraints_ext.o smtbx/refinement/constraints/boost_python/direction.o smtbx/refinement/constraints/boost_python/geometrical_hydrogens.o smtbx/refinement/constraints/boost_python/independent_scalar_parameters.o smtbx/refinement/constraints/boost_python/occupancy.o smtbx/refinement/constraints/boost_python/reparametrisation.o smtbx/refinement/constraints/boost_python/rigid.o smtbx/refinement/constraints/boost_python/same_group.o smtbx/refinement/constraints/boost_python/scaled_adp.o smtbx/refinement/constraints/boost_python/scatterer_parameters.o smtbx/refinement/constraints/boost_python/shared.o smtbx/refinement/constraints/boost_python/special_position.o smtbx/refinement/constraints/boost_python/symmetry_equivalent.o smtbx/refinement/constraints/boost_python/u_eq_dependent_u_iso.o smtbx/refinement/constraints/boost_python/u_iso_dependent_u_iso.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lsmtbx_refinement_constraints -lscitbx_boost_python -lcctbx -lboost_thread -lboost_python313 -lm g++ -o spotfinder/array_family/flex_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -I/usr/include/python3.13 -Ispotfinder/array_family/src -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/array_family/src -Ispotfinder/array_family/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/array_family/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/array_family/flex_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o spotfinder/array_family/flex_distl_spot.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -I/usr/include/python3.13 -Ispotfinder/array_family/src -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/array_family/src -Ispotfinder/array_family/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/array_family/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/array_family/flex_distl_spot.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ Create symlinks for: 'lib/smtbx_refinement_constraints_ext.so.0.0.1' 'lib/smtbx_refinement_constraints_ext.so.0'->'lib/smtbx_refinement_constraints_ext.so.0.0.1' 'lib/smtbx_refinement_constraints_ext.so'->'lib/smtbx_refinement_constraints_ext.so.0.0.1' g++ -o spotfinder/core_toolbox/boost_python/distltbx_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -I/usr/include/python3.13 -Ispotfinder/core_toolbox/boost_python/src -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/core_toolbox/boost_python/src -Ispotfinder/core_toolbox/boost_python/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/core_toolbox/boost_python/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/core_toolbox/boost_python/distltbx_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/smtbx_stl_map_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=smtbx_stl_map_ext.so.0 smtbx/stl/map_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/smtbx_stl_map_ext.so.0.0.1' 'lib/smtbx_stl_map_ext.so.0'->'lib/smtbx_stl_map_ext.so.0.0.1' 'lib/smtbx_stl_map_ext.so'->'lib/smtbx_stl_map_ext.so.0.0.1' g++ -o spotfinder/diffraction/geometry.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -I/usr/include/python3.13 -Ispotfinder/core_toolbox/boost_python/src -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/core_toolbox/boost_python/src -Ispotfinder/core_toolbox/boost_python/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/core_toolbox/boost_python/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/diffraction/geometry.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o spotfinder/dxtbx_toolbox/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -I/usr/include/python3.13 -Ispotfinder/dxtbx_toolbox/src -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/dxtbx_toolbox/src -Ispotfinder/dxtbx_toolbox/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/dxtbx_toolbox/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/dxtbx_toolbox/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/smtbx_refinement_restraints_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=smtbx_refinement_restraints_ext.so.0 smtbx/refinement/restraints/boost_python/origin_fixing.o smtbx/refinement/restraints/boost_python/restraints_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/smtbx_refinement_restraints_ext.so.0.0.1' 'lib/smtbx_refinement_restraints_ext.so.0'->'lib/smtbx_refinement_restraints_ext.so.0.0.1' 'lib/smtbx_refinement_restraints_ext.so'->'lib/smtbx_refinement_restraints_ext.so.0.0.1' g++ -o spotfinder/core_toolbox/boost_python/hough_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/dxtbx/src -I/usr/include/python3.13 -Ispotfinder/core_toolbox/boost_python/src -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/core_toolbox/boost_python/src -Ispotfinder/core_toolbox/boost_python/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/core_toolbox/boost_python/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/spotfinder/core_toolbox/boost_python/hough_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/spotfinder_hough_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=spotfinder_hough_ext.so.0 spotfinder/core_toolbox/boost_python/hough_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lspotfinder -lomptbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/spotfinder_hough_ext.so.0.0.1' 'lib/spotfinder_hough_ext.so.0'->'lib/spotfinder_hough_ext.so.0.0.1' 'lib/spotfinder_hough_ext.so'->'lib/spotfinder_hough_ext.so.0.0.1' g++ -o lib/std_pair_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=std_pair_ext.so.0 boost_adaptbx/std_pair_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread -lboost_python313 -lm -lboost_timer Create symlinks for: 'lib/std_pair_ext.so.0.0.1' 'lib/std_pair_ext.so.0'->'lib/std_pair_ext.so.0.0.1' 'lib/std_pair_ext.so'->'lib/std_pair_ext.so.0.0.1' g++ -o mmtbx/masks/tst_mask.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/mmtbx/masks/tst_mask.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/smtbx_refinement_least_squares_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=smtbx_refinement_least_squares_ext.so.0 smtbx/refinement/boost_python/least_squares_ext.o smtbx/refinement/boost_python/weighting_schemes.o smtbx/refinement/boost_python/least_squares.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lsmtbx_refinement_constraints -lscitbx_boost_python -lcctbx -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/smtbx_refinement_least_squares_ext.so.0.0.1' 'lib/smtbx_refinement_least_squares_ext.so.0'->'lib/smtbx_refinement_least_squares_ext.so.0.0.1' 'lib/smtbx_refinement_least_squares_ext.so'->'lib/smtbx_refinement_least_squares_ext.so.0.0.1' g++ -o scitbx/array_family/boost_python/regression_test_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/usr/include/python3.13 /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/regression_test_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/spotfinder_dxtbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=spotfinder_dxtbx_ext.so.0 spotfinder/dxtbx_toolbox/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -ldxtbxspotfinder -lspotfinder -lomptbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/spotfinder_dxtbx_ext.so.0.0.1' 'lib/spotfinder_dxtbx_ext.so.0'->'lib/spotfinder_dxtbx_ext.so.0.0.1' 'lib/spotfinder_dxtbx_ext.so'->'lib/spotfinder_dxtbx_ext.so.0.0.1' g++ -o scitbx/array_family/tst_accessors.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_accessors.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_accessors.cpp:15: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_helpers.cpp: In instantiation of ‘void {anonymous}::verify(long int, const VectorType1&, const VectorType2&) [with VectorType1 = scitbx::af::small; VectorType2 = scitbx::af::c_grid<1>]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_accessors.cpp:127:11: required from here 127 | verify(__LINE__, a.as_flex_grid().all(), a); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_helpers.cpp:17:18: warning: comparison of integer expressions of different signedness: ‘const long int’ and ‘const long unsigned int’ [-Wsign-compare] 17 | if (v[i] != a[i]) { | ~~~~~^~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_helpers.cpp: In instantiation of ‘void {anonymous}::verify(long int, const VectorType1&, const VectorType2&) [with VectorType1 = scitbx::af::small; VectorType2 = scitbx::af::c_grid<4>]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_accessors.cpp:145:11: required from here 145 | verify(__LINE__, a.as_flex_grid().all(), a); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_helpers.cpp:17:18: warning: comparison of integer expressions of different signedness: ‘const long int’ and ‘const long unsigned int’ [-Wsign-compare] 17 | if (v[i] != a[i]) { | ~~~~~^~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_helpers.cpp: In instantiation of ‘void {anonymous}::verify(long int, const VectorType1&, const VectorType2&) [with VectorType1 = scitbx::af::small; VectorType2 = scitbx::af::c_grid<2>]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_accessors.cpp:172:11: required from here 172 | verify(__LINE__, a.as_flex_grid().all(), a); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_helpers.cpp:17:18: warning: comparison of integer expressions of different signedness: ‘const long int’ and ‘const long unsigned int’ [-Wsign-compare] 17 | if (v[i] != a[i]) { | ~~~~~^~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_helpers.cpp: In instantiation of ‘void {anonymous}::verify(long int, const VectorType1&, const VectorType2&) [with VectorType1 = scitbx::af::small; VectorType2 = scitbx::af::c_grid<3>]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_accessors.cpp:202:11: required from here 202 | verify(__LINE__, a.as_flex_grid().all(), a); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_helpers.cpp:17:18: warning: comparison of integer expressions of different signedness: ‘const long int’ and ‘const long unsigned int’ [-Wsign-compare] 17 | if (v[i] != a[i]) { | ~~~~~^~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_helpers.cpp: In instantiation of ‘void {anonymous}::verify(long int, const VectorType1&, const VectorType2&) [with VectorType1 = scitbx::af::small; VectorType2 = scitbx::af::tiny]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_accessors.cpp:248:11: required from here 248 | verify(__LINE__, a.as_flex_grid().all(), a.all()); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_helpers.cpp:17:18: warning: comparison of integer expressions of different signedness: ‘const long int’ and ‘const long unsigned int’ [-Wsign-compare] 17 | if (v[i] != a[i]) { | ~~~~~^~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_helpers.cpp: In instantiation of ‘void {anonymous}::verify(long int, const VectorType1&, const VectorType2&) [with VectorType1 = scitbx::af::small; VectorType2 = scitbx::af::tiny]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_accessors.cpp:280:11: required from here 280 | verify(__LINE__, a.as_flex_grid().all(), a.all()); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_helpers.cpp:17:18: warning: comparison of integer expressions of different signedness: ‘const long int’ and ‘const long unsigned int’ [-Wsign-compare] 17 | if (v[i] != a[i]) { | ~~~~~^~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_helpers.cpp: In instantiation of ‘void {anonymous}::verify(long int, const VectorType1&, const VectorType2&) [with VectorType1 = scitbx::af::small; VectorType2 = scitbx::af::tiny]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_accessors.cpp:326:11: required from here 326 | verify(__LINE__, a.as_flex_grid().all(), a.all()); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_helpers.cpp:17:18: warning: comparison of integer expressions of different signedness: ‘const long int’ and ‘const long unsigned int’ [-Wsign-compare] 17 | if (v[i] != a[i]) { | ~~~~~^~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_helpers.cpp: In instantiation of ‘void {anonymous}::verify(long int, const VectorType1&, const VectorType2&) [with VectorType1 = scitbx::af::small; VectorType2 = scitbx::af::tiny]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_accessors.cpp:371:11: required from here 371 | verify(__LINE__, a.as_flex_grid().all(), a.all()); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_helpers.cpp:17:18: warning: comparison of integer expressions of different signedness: ‘const long int’ and ‘const long unsigned int’ [-Wsign-compare] 17 | if (v[i] != a[i]) { | ~~~~~^~~~~ In file included from /usr/include/boost/assert.hpp:64, from /usr/include/boost/smart_ptr/shared_ptr.hpp:23, from /usr/include/boost/shared_ptr.hpp:17, from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, from /usr/include/boost/python/converter/arg_to_python.hpp:15, from /usr/include/boost/python/call.hpp:15, from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object.hpp:9, from /usr/include/boost/python/list.hpp:10, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/regression_test_ext.cpp:7: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = std::vector; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = std::vector; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/regression_test_ext.cpp:156:78: required from here 156 | scitbx::boost_python::container_conversions::variable_capacity_policy>(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = std::__cxx11::list; ConversionPolicy = scitbx::boost_python::container_conversions::linked_list_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = std::__cxx11::list; ConversionPolicy = scitbx::boost_python::container_conversions::linked_list_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/regression_test_ext.cpp:160:72: required from here 160 | scitbx::boost_python::container_conversions::linked_list_policy>(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = boost::array; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = boost::array; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/regression_test_ext.cpp:164:71: required from here 164 | scitbx::boost_python::container_conversions::fixed_size_policy>(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = boost::array; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = boost::array; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/regression_test_ext.cpp:168:71: required from here 168 | scitbx::boost_python::container_conversions::fixed_size_policy>(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ 146 | &convertible, | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/boost_python/regression_test_ext.cpp:172:75: required from here 172 | scitbx::boost_python::container_conversions::fixed_capacity_policy>(); | ^ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ g++ -o mmtbx/masks/tst_mask -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread mmtbx/masks/tst_mask.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lmmtbx_masks -liotbx_pdb -lcctbx -lomptbx -lcctbx_sgtbx_asu -lm g++ -o scitbx/array_family/tst_af_1.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_1.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/spotfinder_distltbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=spotfinder_distltbx_ext.so.0 spotfinder/core_toolbox/boost_python/distltbx_ext.o spotfinder/diffraction/geometry.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lspotfinder -lomptbx -lscitbx_boost_python -lboost_thread -lboost_python313 -lm Create symlinks for: 'lib/spotfinder_distltbx_ext.so.0.0.1' 'lib/spotfinder_distltbx_ext.so.0'->'lib/spotfinder_distltbx_ext.so.0.0.1' 'lib/spotfinder_distltbx_ext.so'->'lib/spotfinder_distltbx_ext.so.0.0.1' g++ -o scitbx/array_family/tst_af_2.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_2.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /usr/include/boost/smart_ptr/detail/deprecated_macros.hpp:8, from /usr/include/boost/smart_ptr/scoped_array.hpp:14, from /usr/include/boost/scoped_array.hpp:13, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/ref.h:10, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include/scitbx/array_family/tiny_plain_apply.h:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_1.cpp:1: /usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_1.cpp: In instantiation of ‘static void {anonymous}::array_exercise::run_2() [with ArrayType = scitbx::af::small_plain]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_1.cpp:29:12: required from ‘static void {anonymous}::array_exercise::run() [with ArrayType = scitbx::af::small_plain]’ 29 | run_2(); | ~~~~~^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_1.cpp:619:52: required from here 619 | array_exercise >::run(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_1.cpp:70:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::small_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 70 | for(int i=0;i::run_2() [with ArrayType = scitbx::af::small]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_1.cpp:29:12: required from ‘static void {anonymous}::array_exercise::run() [with ArrayType = scitbx::af::small]’ 29 | run_2(); | ~~~~~^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_1.cpp:621:46: required from here 621 | array_exercise >::run(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_1.cpp:70:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::small_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 70 | for(int i=0;i::run_2() [with ArrayType = scitbx::af::shared_plain]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_1.cpp:29:12: required from ‘static void {anonymous}::array_exercise::run() [with ArrayType = scitbx::af::shared_plain]’ 29 | run_2(); | ~~~~~^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_1.cpp:624:48: required from here 624 | array_exercise >::run(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_1.cpp:70:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 70 | for(int i=0;i::run_2() [with ArrayType = scitbx::af::shared]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_1.cpp:29:12: required from ‘static void {anonymous}::array_exercise::run() [with ArrayType = scitbx::af::shared]’ 29 | run_2(); | ~~~~~^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_1.cpp:629:42: required from here 629 | array_exercise >::run(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_1.cpp:70:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 70 | for(int i=0;i::run_1() [with ArrayType = scitbx::af::versa_plain; AltArrayType = scitbx::af::versa_plain >]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_1.cpp:415:12: required from ‘static void {anonymous}::versa_exercise::run() [with ArrayType = scitbx::af::versa_plain; AltArrayType = scitbx::af::versa_plain >]’ 415 | run_1(); | ~~~~~^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_1.cpp:635:64: required from here 634 | versa_exercise, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 635 | af::versa_plain > >::run(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_1.cpp:437:52: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘scitbx::af::versa_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 437 | check_true(__LINE__, a2.end() - a2.begin() == a2.size()); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_1.cpp:438:52: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘scitbx::af::versa_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 438 | check_true(__LINE__, a3.end() - a3.begin() == a3.size()); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_1.cpp:439:52: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘scitbx::af::versa_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 439 | check_true(__LINE__, a4.end() - a4.begin() == a4.size()); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_1.cpp:440:52: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘scitbx::af::versa_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 440 | check_true(__LINE__, a5.end() - a5.begin() == a5.size()); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_1.cpp:441:52: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘scitbx::af::versa_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 441 | check_true(__LINE__, a6.end() - a6.begin() == a6.size()); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_1.cpp: In instantiation of ‘static void {anonymous}::versa_exercise::run_1() [with ArrayType = scitbx::af::versa; AltArrayType = scitbx::af::versa >]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_1.cpp:415:12: required from ‘static void {anonymous}::versa_exercise::run() [with ArrayType = scitbx::af::versa; AltArrayType = scitbx::af::versa >]’ 415 | run_1(); | ~~~~~^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_1.cpp:637:58: required from here 636 | versa_exercise, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 637 | af::versa > >::run(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_1.cpp:437:52: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘scitbx::af::versa_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 437 | check_true(__LINE__, a2.end() - a2.begin() == a2.size()); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_1.cpp:438:52: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘scitbx::af::versa_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 438 | check_true(__LINE__, a3.end() - a3.begin() == a3.size()); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_1.cpp:439:52: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘scitbx::af::versa_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 439 | check_true(__LINE__, a4.end() - a4.begin() == a4.size()); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_1.cpp:440:52: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘scitbx::af::versa_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 440 | check_true(__LINE__, a5.end() - a5.begin() == a5.size()); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_1.cpp:441:52: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘scitbx::af::versa_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 441 | check_true(__LINE__, a6.end() - a6.begin() == a6.size()); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include/scitbx/array_family/small_plain_apply.h:15, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_1.cpp:3: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small_plain.h: In instantiation of ‘scitbx::af::small_plain::small_plain(const ElementType*, const ElementType*) [with ElementType = int; long unsigned int N = 128]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_1.cpp:41:17: required from ‘static void {anonymous}::array_exercise::run_1() [with ArrayType = scitbx::af::small_plain]’ 41 | ArrayType a5(a4.begin(), a4.begin()); | ^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_1.cpp:28:12: required from ‘static void {anonymous}::array_exercise::run() [with ArrayType = scitbx::af::small_plain]’ 28 | run_1(); | ~~~~~^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_1.cpp:619:52: required from here 619 | array_exercise >::run(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/small_plain.h:59:15: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘long int’ [-Wsign-compare] 59 | if (N < last - first) throw_range_error(); | ~~^~~~~~~~~~~~~~ g++ -o scitbx/array_family/tst_accessors -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_accessors.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread g++ -o lib/smtbx_structure_factors_direct_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=smtbx_structure_factors_direct_ext.so.0 smtbx/structure_factors/direct/boost_python/ext.o smtbx/structure_factors/direct/boost_python/standard_xray.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lboost_thread -lboost_python313 -lm g++ -o scitbx/array_family/tst_af_3.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_3.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ Create symlinks for: 'lib/smtbx_structure_factors_direct_ext.so.0.0.1' 'lib/smtbx_structure_factors_direct_ext.so.0'->'lib/smtbx_structure_factors_direct_ext.so.0.0.1' 'lib/smtbx_structure_factors_direct_ext.so'->'lib/smtbx_structure_factors_direct_ext.so.0.0.1' g++ -o scitbx/array_family/tst_af_4.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_4.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/array_family/tst_af_2 -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_af_2.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread g++ -o scitbx/array_family/tst_af_5.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_af_5.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/array_family/boost_python/regression_test_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=regression_test_ext.so.0 scitbx/array_family/boost_python/regression_test_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_python313 -lm -lboost_numpy313 Create symlinks for: 'scitbx/array_family/boost_python/regression_test_ext.so.0.0.1' 'scitbx/array_family/boost_python/regression_test_ext.so.0'->'scitbx/array_family/boost_python/regression_test_ext.so.0.0.1' 'scitbx/array_family/boost_python/regression_test_ext.so'->'scitbx/array_family/boost_python/regression_test_ext.so.0.0.1' g++ -o scitbx/array_family/tst_mat3.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_mat3.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/array_family/tst_af_3 -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_af_3.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread g++ -o scitbx/array_family/tst_optional_copy.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_optional_copy.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/array_family/tst_af_1 -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_af_1.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread g++ -o scitbx/array_family/tst_rectangular_full_packed.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_rectangular_full_packed.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/array_family/tst_mat3 -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_mat3.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lm g++ -o scitbx/array_family/tst_af_5 -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_af_5.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lm g++ -o scitbx/array_family/tst_ref_matrix_facet.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_ref_matrix_facet.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/array_family/tst_sym_mat3.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_sym_mat3.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_rectangular_full_packed.cpp: In function ‘int main()’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/array_family/tst_rectangular_full_packed.cpp:52:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 52 | for(int i=0; i'lib/spotfinder_array_family_flex_ext.so.0.0.1' 'lib/spotfinder_array_family_flex_ext.so'->'lib/spotfinder_array_family_flex_ext.so.0.0.1' g++ -o scitbx/fftpack/timing/fftpack_timer.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/fftpack/timing/fftpack_timer.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/error/tst_error -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/error/tst_error.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread g++ -o scitbx/array_family/tst_unsigned_float_arithmetic -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_unsigned_float_arithmetic.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread g++ -o scitbx/array_family/tst_sym_mat3 -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_sym_mat3.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lm g++ -o scitbx/fftpack/timing/test0.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/fftpack/timing/test0.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/lbfgs/sdrive_fem.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable scitbx/lbfgs/sdrive_fem.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/lbfgs/tst_lbfgs.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgs/tst_lbfgs.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/fftpack/complex_to_complex.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/fftpack/timing/fftpack_timer.cpp:6: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/fftpack/factorization.h: In constructor ‘scitbx::fftpack::factorization::factorization(std::size_t, bool)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/fftpack/factorization.h:64:32: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::tiny_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 64 | for (i = 0; red_n > 1 && i < opt_factors.size(); i++) { | ~~^~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/fftpack/factorization.h:67:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::tiny_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 67 | for (i = 0; i < opt_factors.size(); i++) { | ~~^~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/io.hpp:8, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/close_chain.hpp:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/common.hpp:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/read.hpp:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/major_types.hpp:6, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem.hpp:10, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include/scitbx/lbfgs_fem.hpp:1, from scitbx/lbfgs/sdrive_fem.cpp:1: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/utils/simple_streams.hpp: In member function ‘virtual void fem::utils::simple_ostream_to_char_ptr_and_size::put(char)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/utils/simple_streams.hpp:63:13: warning: comparison of integer expressions of different signedness: ‘fem::ssize_t’ {aka ‘long int’} and ‘fem::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 63 | if (i < sz) s[i++] = c; | ~~^~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/fftpack/complex_to_complex.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/fftpack/complex_to_complex_3d.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/fftpack/timing/test0.cpp:3: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/fftpack/factorization.h: In constructor ‘scitbx::fftpack::factorization::factorization(std::size_t, bool)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/fftpack/factorization.h:64:32: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::tiny_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 64 | for (i = 0; red_n > 1 && i < opt_factors.size(); i++) { | ~~^~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/fftpack/factorization.h:67:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::tiny_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 67 | for (i = 0; i < opt_factors.size(); i++) { | ~~^~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/common.hpp: In member function ‘void fem::common::getarg(int, fem::str_ref) const’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/common.hpp:40:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 40 | if (pos < 0 || pos >= command_line_args.buffer.size()) { | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/utils/string_to_double_fmt.hpp:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/read.hpp:9: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/utils/string_to_double.hpp: In member function ‘void fem::utils::string_to_double::convert(fem::utils::simple_istream&, unsigned int, int)’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/utils/string_to_double.hpp:115:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const unsigned int’ [-Wsign-compare] 115 | if (dexp <= ad_hoc_limits::max_digit_count) { | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/read.hpp: In member function ‘double fem::read_loop::read_fmt_double()’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/read.hpp:653:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 653 | if (iw+1 != ed.size()) { | ~~~~~^~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/variant.hpp:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/major_types.hpp:7: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/utils/equivalence.hpp: In member function ‘void fem::utils::equivalence::array_alignment::infer_diffs0_from_diff_matrix()’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/utils/equivalence.hpp:93:28: warning: comparison of integer expressions of different signedness: ‘const fem::ssize_t’ {aka ‘const long int’} and ‘fem::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 93 | if (c0e[0] == i0) { | ~~~~~~~^~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/major_types.hpp:8: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/write.hpp: In destructor ‘fem::write_loop::~write_loop()’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/fable/fem/write.hpp:704:24: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 704 | while (pos < internal_file_len) { | ~~~~^~~~~~~~~~~~~~~~~~~ g++ -o scitbx/array_family/tst_vec3 -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_vec3.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lm g++ -o scitbx/lbfgsb/dev/driver1.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/dev/driver1.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/lbfgs/sdrive_fem -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/lbfgs/sdrive_fem.o scitbx/lbfgs/lbfgs_fem.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lm g++ -o scitbx/lbfgsb/dev/driver2.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/dev/driver2.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/lbfgs/tst_lbfgs -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/lbfgs/tst_lbfgs.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lm g++ -o scitbx/lbfgsb/dev/driver3.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/dev/driver3.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/serialization/base_256.h:2, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/floating_point_epsilon.h:4, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:5, from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/dev/driver1.cpp:1: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h: In instantiation of ‘void scitbx::lbfgsb::raw::mainlb(const int&, const int&, const ref1&, const ref1&, const ref1&, const ref1&, FloatType&, const ref1&, const FloatType&, const FloatType&, const ref2&, const ref2&, const ref2&, const ref2&, const ref2&, const ref2&, const ref2&, const ref2&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, std::string&, const int&, std::string&, const ref1&, const ref1&, const ref1&, bool) [with FloatType = double; std::string = std::__cxx11::basic_string]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:4433:11: required from ‘void scitbx::lbfgsb::raw::setulb(const int&, const int&, const ref1&, const ref1&, const ref1&, const ref1&, FloatType&, const ref1&, const FloatType&, const FloatType&, const ref1&, const ref1&, std::string&, const int&, std::string&, const ref1&, const ref1&, const ref1&, bool) [with FloatType = double; std::string = std::__cxx11::basic_string]’ 4433 | mainlb(n,m,x,l,u,nbd,f,g,factr,pgtol, | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 4434 | wa.get2(lws, n, m), | ~~~~~~~~~~~~~~~~~~~ 4435 | wa.get2(lwy, n, m), | ~~~~~~~~~~~~~~~~~~~ 4436 | wa.get2(lsy, m, m), | ~~~~~~~~~~~~~~~~~~~ 4437 | wa.get2(lss, m, m), | ~~~~~~~~~~~~~~~~~~~ 4438 | wa.get2(lyy, m, m), | ~~~~~~~~~~~~~~~~~~~ 4439 | wa.get2(lwt, m, m), | ~~~~~~~~~~~~~~~~~~~ 4440 | wa.get2(lwn, 2*m, 2*m), | ~~~~~~~~~~~~~~~~~~~~~~~ 4441 | wa.get2(lsnd, 2*m, 2*m), | ~~~~~~~~~~~~~~~~~~~~~~~~ 4442 | wa.get1(lz, n), | ~~~~~~~~~~~~~~~ 4443 | wa.get1(lr, n), | ~~~~~~~~~~~~~~~ 4444 | wa.get1(ld, n), | ~~~~~~~~~~~~~~~ 4445 | wa.get1(lt, n), | ~~~~~~~~~~~~~~~ 4446 | wa.get1(lwa, 8*m), | ~~~~~~~~~~~~~~~~~~ 4447 | wa.get1(lsg, m), | ~~~~~~~~~~~~~~~~ 4448 | wa.get1(lsgo, m), | ~~~~~~~~~~~~~~~~~ 4449 | wa.get1(lyg, m), | ~~~~~~~~~~~~~~~~ 4450 | wa.get1(lygo, m), | ~~~~~~~~~~~~~~~~~ 4451 | iwa.get1(1, n), | ~~~~~~~~~~~~~~~ 4452 | iwa.get1(n+1, n), | ~~~~~~~~~~~~~~~~~ 4453 | iwa.get1(2*n+1, n), | ~~~~~~~~~~~~~~~~~~~ 4454 | task,iprint,csave,lsave, | ~~~~~~~~~~~~~~~~~~~~~~~~ 4455 | ref1(&isave(22), 23), | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 4456 | dsave, | ~~~~~~ 4457 | enable_stp_init); | ~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/dev/driver1.cpp:69:11: required from here 69 | setulb( | ~~~~~~^ 70 | n,m,x,l,u,nbd,f,g,factr,pgtol,wa,iwa,task,iprint, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 71 | csave,lsave,isave,dsave); | ~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3671:28: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] 3671 | SCITBX_ASSERT(x.size() == n); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3671:5: note: in expansion of macro ‘SCITBX_ASSERT’ 3671 | SCITBX_ASSERT(x.size() == n); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3672:28: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] 3672 | SCITBX_ASSERT(l.size() == n); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3672:5: note: in expansion of macro ‘SCITBX_ASSERT’ 3672 | SCITBX_ASSERT(l.size() == n); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3673:28: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] 3673 | SCITBX_ASSERT(u.size() == n); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3673:5: note: in expansion of macro ‘SCITBX_ASSERT’ 3673 | SCITBX_ASSERT(u.size() == n); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3674:30: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] 3674 | SCITBX_ASSERT(nbd.size() == n); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3674:5: note: in expansion of macro ‘SCITBX_ASSERT’ 3674 | SCITBX_ASSERT(nbd.size() == n); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3675:28: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] 3675 | SCITBX_ASSERT(g.size() == n); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3675:5: note: in expansion of macro ‘SCITBX_ASSERT’ 3675 | SCITBX_ASSERT(g.size() == n); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h: In instantiation of ‘void scitbx::lbfgsb::raw::write_ref1(const std::string&, const ref1&, const char*) [with ElementType = double; std::string = std::__cxx11::basic_string]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:974:19: required from ‘void scitbx::lbfgsb::raw::prn3lb(const int&, const ref1&, const FloatType&, const std::string&, const int&, const int&, const int&, const int&, const int&, const int&, const int&, const int&, const FloatType&, const FloatType&, const int&, const std::string&, const int&, const FloatType&, const FloatType&, const int&, const FloatType&, const FloatType&, const FloatType&) [with FloatType = double; std::string = std::__cxx11::basic_string]’ 974 | write_ref1(" X =", x); | ~~~~~~~~~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3786:15: required from ‘void scitbx::lbfgsb::raw::mainlb(const int&, const int&, const ref1&, const ref1&, const ref1&, const ref1&, FloatType&, const ref1&, const FloatType&, const FloatType&, const ref2&, const ref2&, const ref2&, const ref2&, const ref2&, const ref2&, const ref2&, const ref2&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, std::string&, const int&, std::string&, const ref1&, const ref1&, const ref1&, bool) [with FloatType = double; std::string = std::__cxx11::basic_string]’ 3786 | prn3lb(n,x,f,task,iprint,info,itfile, | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 3787 | iter,nfgv,nintol,nskip,nact,sbgnrm, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 3788 | zero,nint,word,iback,stp,xstep,k, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 3789 | cachyt,sbtime,lnscht); | ~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:4433:11: required from ‘void scitbx::lbfgsb::raw::setulb(const int&, const int&, const ref1&, const ref1&, const ref1&, const ref1&, FloatType&, const ref1&, const FloatType&, const FloatType&, const ref1&, const ref1&, std::string&, const int&, std::string&, const ref1&, const ref1&, const ref1&, bool) [with FloatType = double; std::string = std::__cxx11::basic_string]’ 4433 | mainlb(n,m,x,l,u,nbd,f,g,factr,pgtol, | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 4434 | wa.get2(lws, n, m), | ~~~~~~~~~~~~~~~~~~~ 4435 | wa.get2(lwy, n, m), | ~~~~~~~~~~~~~~~~~~~ 4436 | wa.get2(lsy, m, m), | ~~~~~~~~~~~~~~~~~~~ 4437 | wa.get2(lss, m, m), | ~~~~~~~~~~~~~~~~~~~ 4438 | wa.get2(lyy, m, m), | ~~~~~~~~~~~~~~~~~~~ 4439 | wa.get2(lwt, m, m), | ~~~~~~~~~~~~~~~~~~~ 4440 | wa.get2(lwn, 2*m, 2*m), | ~~~~~~~~~~~~~~~~~~~~~~~ 4441 | wa.get2(lsnd, 2*m, 2*m), | ~~~~~~~~~~~~~~~~~~~~~~~~ 4442 | wa.get1(lz, n), | ~~~~~~~~~~~~~~~ 4443 | wa.get1(lr, n), | ~~~~~~~~~~~~~~~ 4444 | wa.get1(ld, n), | ~~~~~~~~~~~~~~~ 4445 | wa.get1(lt, n), | ~~~~~~~~~~~~~~~ 4446 | wa.get1(lwa, 8*m), | ~~~~~~~~~~~~~~~~~~ 4447 | wa.get1(lsg, m), | ~~~~~~~~~~~~~~~~ 4448 | wa.get1(lsgo, m), | ~~~~~~~~~~~~~~~~~ 4449 | wa.get1(lyg, m), | ~~~~~~~~~~~~~~~~ 4450 | wa.get1(lygo, m), | ~~~~~~~~~~~~~~~~~ 4451 | iwa.get1(1, n), | ~~~~~~~~~~~~~~~ 4452 | iwa.get1(n+1, n), | ~~~~~~~~~~~~~~~~~ 4453 | iwa.get1(2*n+1, n), | ~~~~~~~~~~~~~~~~~~~ 4454 | task,iprint,csave,lsave, | ~~~~~~~~~~~~~~~~~~~~~~~~ 4455 | ref1(&isave(22), 23), | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 4456 | dsave, | ~~~~~~ 4457 | enable_stp_init); | ~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/dev/driver1.cpp:69:11: required from here 69 | setulb( | ~~~~~~^ 70 | n,m,x,l,u,nbd,f,g,factr,pgtol,wa,iwa,task,iprint, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 71 | csave,lsave,isave,dsave); | ~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:184:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 184 | for(int i=1;i<=a.size();i++) { | ~^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:188:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 188 | for(int j=0;j&, const char*) [with ElementType = double; std::string = std::__cxx11::basic_string]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/dev/driver2.cpp:102:19: required from here 102 | write_ref1(" ", x); | ~~~~~~~~~~^~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:184:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 184 | for(int i=1;i<=a.size();i++) { | ~^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:188:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 188 | for(int j=0;j&, const ref1&, const ref1&, const ref1&, FloatType&, const ref1&, const FloatType&, const FloatType&, const ref2&, const ref2&, const ref2&, const ref2&, const ref2&, const ref2&, const ref2&, const ref2&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, std::string&, const int&, std::string&, const ref1&, const ref1&, const ref1&, bool) [with FloatType = double; std::string = std::__cxx11::basic_string]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:4433:11: required from ‘void scitbx::lbfgsb::raw::setulb(const int&, const int&, const ref1&, const ref1&, const ref1&, const ref1&, FloatType&, const ref1&, const FloatType&, const FloatType&, const ref1&, const ref1&, std::string&, const int&, std::string&, const ref1&, const ref1&, const ref1&, bool) [with FloatType = double; std::string = std::__cxx11::basic_string]’ 4433 | mainlb(n,m,x,l,u,nbd,f,g,factr,pgtol, | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 4434 | wa.get2(lws, n, m), | ~~~~~~~~~~~~~~~~~~~ 4435 | wa.get2(lwy, n, m), | ~~~~~~~~~~~~~~~~~~~ 4436 | wa.get2(lsy, m, m), | ~~~~~~~~~~~~~~~~~~~ 4437 | wa.get2(lss, m, m), | ~~~~~~~~~~~~~~~~~~~ 4438 | wa.get2(lyy, m, m), | ~~~~~~~~~~~~~~~~~~~ 4439 | wa.get2(lwt, m, m), | ~~~~~~~~~~~~~~~~~~~ 4440 | wa.get2(lwn, 2*m, 2*m), | ~~~~~~~~~~~~~~~~~~~~~~~ 4441 | wa.get2(lsnd, 2*m, 2*m), | ~~~~~~~~~~~~~~~~~~~~~~~~ 4442 | wa.get1(lz, n), | ~~~~~~~~~~~~~~~ 4443 | wa.get1(lr, n), | ~~~~~~~~~~~~~~~ 4444 | wa.get1(ld, n), | ~~~~~~~~~~~~~~~ 4445 | wa.get1(lt, n), | ~~~~~~~~~~~~~~~ 4446 | wa.get1(lwa, 8*m), | ~~~~~~~~~~~~~~~~~~ 4447 | wa.get1(lsg, m), | ~~~~~~~~~~~~~~~~ 4448 | wa.get1(lsgo, m), | ~~~~~~~~~~~~~~~~~ 4449 | wa.get1(lyg, m), | ~~~~~~~~~~~~~~~~ 4450 | wa.get1(lygo, m), | ~~~~~~~~~~~~~~~~~ 4451 | iwa.get1(1, n), | ~~~~~~~~~~~~~~~ 4452 | iwa.get1(n+1, n), | ~~~~~~~~~~~~~~~~~ 4453 | iwa.get1(2*n+1, n), | ~~~~~~~~~~~~~~~~~~~ 4454 | task,iprint,csave,lsave, | ~~~~~~~~~~~~~~~~~~~~~~~~ 4455 | ref1(&isave(22), 23), | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 4456 | dsave, | ~~~~~~ 4457 | enable_stp_init); | ~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/dev/driver2.cpp:70:11: required from here 70 | setulb( | ~~~~~~^ 71 | n,m,x,l,u,nbd,f,g,factr,pgtol,wa,iwa,task,iprint, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 72 | csave,lsave,isave,dsave); | ~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3671:28: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] 3671 | SCITBX_ASSERT(x.size() == n); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3671:5: note: in expansion of macro ‘SCITBX_ASSERT’ 3671 | SCITBX_ASSERT(x.size() == n); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3672:28: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] 3672 | SCITBX_ASSERT(l.size() == n); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3672:5: note: in expansion of macro ‘SCITBX_ASSERT’ 3672 | SCITBX_ASSERT(l.size() == n); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3673:28: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] 3673 | SCITBX_ASSERT(u.size() == n); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3673:5: note: in expansion of macro ‘SCITBX_ASSERT’ 3673 | SCITBX_ASSERT(u.size() == n); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3674:30: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] 3674 | SCITBX_ASSERT(nbd.size() == n); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3674:5: note: in expansion of macro ‘SCITBX_ASSERT’ 3674 | SCITBX_ASSERT(nbd.size() == n); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3675:28: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] 3675 | SCITBX_ASSERT(g.size() == n); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3675:5: note: in expansion of macro ‘SCITBX_ASSERT’ 3675 | SCITBX_ASSERT(g.size() == n); | ^~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/dev/driver3.cpp:1: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h: In instantiation of ‘void scitbx::lbfgsb::raw::write_ref1(const std::string&, const ref1&, const char*) [with ElementType = double; std::string = std::__cxx11::basic_string]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/dev/driver3.cpp:82:19: required from here 82 | write_ref1(" ", wa.get1(j+1,n)); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:184:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 184 | for(int i=1;i<=a.size();i++) { | ~^~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:188:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 188 | for(int j=0;j&, const ref1&, const ref1&, const ref1&, FloatType&, const ref1&, const FloatType&, const FloatType&, const ref2&, const ref2&, const ref2&, const ref2&, const ref2&, const ref2&, const ref2&, const ref2&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, const ref1&, std::string&, const int&, std::string&, const ref1&, const ref1&, const ref1&, bool) [with FloatType = double; std::string = std::__cxx11::basic_string]’: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:4433:11: required from ‘void scitbx::lbfgsb::raw::setulb(const int&, const int&, const ref1&, const ref1&, const ref1&, const ref1&, FloatType&, const ref1&, const FloatType&, const FloatType&, const ref1&, const ref1&, std::string&, const int&, std::string&, const ref1&, const ref1&, const ref1&, bool) [with FloatType = double; std::string = std::__cxx11::basic_string]’ 4433 | mainlb(n,m,x,l,u,nbd,f,g,factr,pgtol, | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 4434 | wa.get2(lws, n, m), | ~~~~~~~~~~~~~~~~~~~ 4435 | wa.get2(lwy, n, m), | ~~~~~~~~~~~~~~~~~~~ 4436 | wa.get2(lsy, m, m), | ~~~~~~~~~~~~~~~~~~~ 4437 | wa.get2(lss, m, m), | ~~~~~~~~~~~~~~~~~~~ 4438 | wa.get2(lyy, m, m), | ~~~~~~~~~~~~~~~~~~~ 4439 | wa.get2(lwt, m, m), | ~~~~~~~~~~~~~~~~~~~ 4440 | wa.get2(lwn, 2*m, 2*m), | ~~~~~~~~~~~~~~~~~~~~~~~ 4441 | wa.get2(lsnd, 2*m, 2*m), | ~~~~~~~~~~~~~~~~~~~~~~~~ 4442 | wa.get1(lz, n), | ~~~~~~~~~~~~~~~ 4443 | wa.get1(lr, n), | ~~~~~~~~~~~~~~~ 4444 | wa.get1(ld, n), | ~~~~~~~~~~~~~~~ 4445 | wa.get1(lt, n), | ~~~~~~~~~~~~~~~ 4446 | wa.get1(lwa, 8*m), | ~~~~~~~~~~~~~~~~~~ 4447 | wa.get1(lsg, m), | ~~~~~~~~~~~~~~~~ 4448 | wa.get1(lsgo, m), | ~~~~~~~~~~~~~~~~~ 4449 | wa.get1(lyg, m), | ~~~~~~~~~~~~~~~~ 4450 | wa.get1(lygo, m), | ~~~~~~~~~~~~~~~~~ 4451 | iwa.get1(1, n), | ~~~~~~~~~~~~~~~ 4452 | iwa.get1(n+1, n), | ~~~~~~~~~~~~~~~~~ 4453 | iwa.get1(2*n+1, n), | ~~~~~~~~~~~~~~~~~~~ 4454 | task,iprint,csave,lsave, | ~~~~~~~~~~~~~~~~~~~~~~~~ 4455 | ref1(&isave(22), 23), | ~~~~~~~~~~~~~~~~~~~~~~~~~~ 4456 | dsave, | ~~~~~~ 4457 | enable_stp_init); | ~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/dev/driver3.cpp:72:11: required from here 72 | setulb( | ~~~~~~^ 73 | n,m,x,l,u,nbd,f,g,factr,pgtol,wa,iwa,task,iprint, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 74 | csave,lsave,isave,dsave); | ~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3671:28: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] 3671 | SCITBX_ASSERT(x.size() == n); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3671:5: note: in expansion of macro ‘SCITBX_ASSERT’ 3671 | SCITBX_ASSERT(x.size() == n); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3672:28: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] 3672 | SCITBX_ASSERT(l.size() == n); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3672:5: note: in expansion of macro ‘SCITBX_ASSERT’ 3672 | SCITBX_ASSERT(l.size() == n); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3673:28: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] 3673 | SCITBX_ASSERT(u.size() == n); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3673:5: note: in expansion of macro ‘SCITBX_ASSERT’ 3673 | SCITBX_ASSERT(u.size() == n); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3674:30: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] 3674 | SCITBX_ASSERT(nbd.size() == n); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3674:5: note: in expansion of macro ‘SCITBX_ASSERT’ 3674 | SCITBX_ASSERT(nbd.size() == n); | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3675:28: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] 3675 | SCITBX_ASSERT(g.size() == n); /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/lbfgsb/raw.h:3675:5: note: in expansion of macro ‘SCITBX_ASSERT’ 3675 | SCITBX_ASSERT(g.size() == n); | ^~~~~~~~~~~~~ g++ -o scitbx/fftpack/timing/fftpack_timer -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/fftpack/timing/fftpack_timer.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread -lomptbx -lm g++ -o scitbx/math/tests/tst.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -Iscitbx/math/tests -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/tests /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/math/tests/tst.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/fftpack/timing/test0 -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/fftpack/timing/test0.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread -lomptbx -lm g++ -o scitbx/matrix/tests/tst_cholesky.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -Iscitbx/matrix/tests -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/matrix/tests /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/matrix/tests/tst_cholesky.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/tests/tst -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/math/tests/tst.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread g++ -o scitbx/matrix/tests/tst_givens.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -Iscitbx/matrix/tests -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/matrix/tests /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/matrix/tests/tst_givens.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/lbfgsb/dev/driver3 -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/lbfgsb/dev/driver3.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_timer -lboost_chrono -lm g++ -o scitbx/lbfgsb/dev/driver2 -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/lbfgsb/dev/driver2.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_timer -lboost_chrono -lm g++ -o scitbx/matrix/tests/tst_householder.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -Iscitbx/matrix/tests -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/matrix/tests /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/matrix/tests/tst_householder.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/matrix/tests/tst_svd.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -Iscitbx/matrix/tests -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/matrix/tests /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/matrix/tests/tst_svd.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/lbfgsb/dev/driver1 -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/lbfgsb/dev/driver1.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_timer -lboost_chrono -lm g++ -o scitbx/serialization/tst_base_256.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -Iscitbx/serialization -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/serialization /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/serialization/tst_base_256.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/matrix/tests/tst_givens -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/matrix/tests/tst_givens.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread g++ -o scitbx/sparse/tests/tst_sparse.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -Iscitbx/sparse/tests -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/sparse/tests /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/scitbx/sparse/tests/tst_sparse.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/serialization/tst_base_256 -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/serialization/tst_base_256.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lm g++ -o smtbx/refinement/constraints/tests/tst_geometrical_hydrogens.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints/tests/tst_geometrical_hydrogens.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/matrix/tests/tst_svd -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/matrix/tests/tst_svd.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread g++ -o smtbx/refinement/constraints/tests/tst_reparametrisation.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints/tests/tst_reparametrisation.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/matrix/tests/tst_cholesky -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/matrix/tests/tst_cholesky.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread g++ -o scitbx/matrix/tests/tst_householder -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/matrix/tests/tst_householder.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread g++ -o smtbx/refinement/constraints/tests/tst_special_position.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_/include -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/smtbx/refinement/constraints/tests/tst_special_position.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/sparse/tests/tst_sparse -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/sparse/tests/tst_sparse.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lboost_thread g++ -o smtbx/refinement/constraints/tests/tst_geometrical_hydrogens -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread smtbx/refinement/constraints/tests/tst_geometrical_hydrogens.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lsmtbx_refinement_constraints -lboost_thread g++ -o scitbx/array_family/tst_af_4 -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_af_4.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lm g++ -o smtbx/refinement/constraints/tests/tst_reparametrisation -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread smtbx/refinement/constraints/tests/tst_reparametrisation.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lsmtbx_refinement_constraints -lboost_thread g++ -o smtbx/refinement/constraints/tests/tst_special_position -rdynamic -Wl,-z,relro -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread smtbx/refinement/constraints/tests/tst_special_position.o -L/usr/lib -L/usr/lib64 -L/usr/lib/x86_64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/lib -lcctbx -lsmtbx_refinement_constraints -lboost_thread scons: done building targets. usr+sys time: 23.71 seconds wall clock time: 13 minutes 40.57 seconds (820.57 seconds total) iconv -f ISO-8859-1 -t UTF-8 cctbx/eltbx/covalent_radii.h > covalent_radii.h mv covalent_radii.h cctbx/eltbx/covalent_radii.h dh_auto_build -- --name cctbx -s custom --build-args="cp -f {build_dir}_/lib/*_ext.so {build_dir}_/scitbx/array_family/boost_python/regression_test_ext.so {build_dir}" pybuild --build -i python{version} -p "3.14 3.13" --name cctbx -s custom --build-args="cp -f {build_dir}_/lib/*_ext.so {build_dir}_/scitbx/array_family/boost_python/regression_test_ext.so {build_dir}" --parallel=6 I: pybuild base:385: cp -f '/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build'_/lib/*_ext.so '/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build'_/scitbx/array_family/boost_python/regression_test_ext.so '/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build' I: pybuild base:385: cp -f '/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build'_/lib/*_ext.so '/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build'_/scitbx/array_family/boost_python/regression_test_ext.so '/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build' dh_auto_build -- --name cctbx -s custom --build-args="cp -f {build_dir}_/lib/dxtbx_flumpy.so {build_dir}" pybuild --build -i python{version} -p "3.14 3.13" --name cctbx -s custom --build-args="cp -f {build_dir}_/lib/dxtbx_flumpy.so {build_dir}" --parallel=6 I: pybuild base:385: cp -f '/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build'_/lib/dxtbx_flumpy.so '/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build' I: pybuild base:385: cp -f '/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build'_/lib/dxtbx_flumpy.so '/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build' make[1]: Leaving directory '/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1' rm -f debian/libcctbx-dev.debhelper.log debian/libcctbx0.debhelper.log debian/python3-cctbx.debhelper.log debian/rules override_dh_auto_test make[1]: Entering directory '/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1' # DOES NOT WORK, source code must be modified in order to find the expected # /usr/share/cctbx libtbx_env file during the build process make[1]: Leaving directory '/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1' create-stamp debian/debhelper-build-stamp dh_testroot -a -O--buildsystem=pybuild dh_prep -a -O--buildsystem=pybuild rm -f -- debian/libcctbx0.substvars debian/libcctbx-dev.substvars debian/python3-cctbx.substvars rm -fr -- debian/.debhelper/generated/libcctbx0/ debian/libcctbx0/ debian/tmp/ debian/.debhelper/generated/libcctbx-dev/ debian/libcctbx-dev/ debian/.debhelper/generated/python3-cctbx/ debian/python3-cctbx/ debian/rules override_dh_auto_install make[1]: Entering directory '/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1' # Python modules dh_auto_install -- --name cctbx install -m0755 -d /build/reproducible-path/cctbx-2026.4\+ds2\+\~3.28.0\+ds1/debian/tmp pybuild --install -i python{version} -p "3.14 3.13" --name cctbx --parallel=6 I: pybuild plugin_pyproject:199: Copying package built for python3.14 to destdir I: pybuild plugin_pyproject:199: Copying package built for python3.13 to destdir dh_auto_install --sourcedirectory=dxtbx -- --name dxtbx install -m0755 -d /build/reproducible-path/cctbx-2026.4\+ds2\+\~3.28.0\+ds1/debian/tmp pybuild --install -i python{version} -p "3.14 3.13" --name dxtbx --dir dxtbx --parallel=6 I: pybuild plugin_pyproject:199: Copying package built for python3.14 to destdir I: pybuild plugin_pyproject:199: Copying package built for python3.13 to destdir # pybuild does not set properly dest-dir when name is set. So merge both installation under debian/tmp install -d debian/tmp rsync -av --ignore-existing debian/python3-cctbx/ debian/python3-dxtbx/ debian/tmp sending incremental file list usr/ usr/bin/ usr/bin/cxi.image2pickle usr/bin/cxi.image_average usr/bin/dev.dxtbx.debug_memory usr/bin/dev.dxtbx.read_sequence usr/bin/dxtbx.any2nexus usr/bin/dxtbx.depends_on usr/bin/dxtbx.detector_superpose usr/bin/dxtbx.display_parallax_correction usr/bin/dxtbx.dlsnxs2cbf usr/bin/dxtbx.image2pickle usr/bin/dxtbx.image_average usr/bin/dxtbx.install_format usr/bin/dxtbx.overload usr/bin/dxtbx.plot_detector_models usr/bin/dxtbx.print_header usr/bin/dxtbx.print_matching_images usr/bin/dxtbx.radial_average usr/bin/dxtbx.saturation usr/bin/dxtbx.show_mask_info usr/bin/dxtbx.show_matching_formats usr/bin/dxtbx.show_registry usr/lib/ usr/lib/python3.13/ usr/lib/python3.13/dist-packages/ usr/lib/python3.13/dist-packages/annlib_ext.so usr/lib/python3.13/dist-packages/boost_adaptbx_boost_thread_test_ext.so usr/lib/python3.13/dist-packages/boost_adaptbx_graph_breadth_first_search_ext.so usr/lib/python3.13/dist-packages/boost_adaptbx_graph_clustering_algorithm_ext.so usr/lib/python3.13/dist-packages/boost_adaptbx_graph_connected_component_algorithm_ext.so usr/lib/python3.13/dist-packages/boost_adaptbx_graph_ext.so usr/lib/python3.13/dist-packages/boost_adaptbx_graph_graph_structure_comparison_ext.so usr/lib/python3.13/dist-packages/boost_adaptbx_graph_maximum_clique_ext.so usr/lib/python3.13/dist-packages/boost_adaptbx_graph_metric_ext.so usr/lib/python3.13/dist-packages/boost_adaptbx_graph_min_cut_max_flow_ext.so usr/lib/python3.13/dist-packages/boost_adaptbx_graph_utility_ext.so usr/lib/python3.13/dist-packages/boost_adaptbx_python_streambuf_test_ext.so usr/lib/python3.13/dist-packages/boost_optional_ext.so usr/lib/python3.13/dist-packages/boost_python_hybrid_times_ext.so usr/lib/python3.13/dist-packages/boost_python_meta_ext.so usr/lib/python3.13/dist-packages/boost_rational_ext.so usr/lib/python3.13/dist-packages/boost_tuple_ext.so usr/lib/python3.13/dist-packages/cbflib_ext.so usr/lib/python3.13/dist-packages/ccp4io_adaptbx_ext.so usr/lib/python3.13/dist-packages/cctbx_adp_restraints_ext.so usr/lib/python3.13/dist-packages/cctbx_adptbx_ext.so usr/lib/python3.13/dist-packages/cctbx_anharmonic_ext.so usr/lib/python3.13/dist-packages/cctbx_array_family_flex_ext.so usr/lib/python3.13/dist-packages/cctbx_asymmetric_map_ext.so usr/lib/python3.13/dist-packages/cctbx_covariance_ext.so usr/lib/python3.13/dist-packages/cctbx_crystal_ext.so usr/lib/python3.13/dist-packages/cctbx_dmtbx_ext.so usr/lib/python3.13/dist-packages/cctbx_eltbx_attenuation_coefficient_ext.so usr/lib/python3.13/dist-packages/cctbx_eltbx_chemical_elements_ext.so usr/lib/python3.13/dist-packages/cctbx_eltbx_covalent_radii_ext.so usr/lib/python3.13/dist-packages/cctbx_eltbx_fp_fdp_ext.so usr/lib/python3.13/dist-packages/cctbx_eltbx_henke_ext.so usr/lib/python3.13/dist-packages/cctbx_eltbx_icsd_radii_ext.so usr/lib/python3.13/dist-packages/cctbx_eltbx_neutron_ext.so usr/lib/python3.13/dist-packages/cctbx_eltbx_sasaki_ext.so usr/lib/python3.13/dist-packages/cctbx_eltbx_tiny_pse_ext.so usr/lib/python3.13/dist-packages/cctbx_eltbx_wavelengths_ext.so usr/lib/python3.13/dist-packages/cctbx_eltbx_xray_scattering_ext.so usr/lib/python3.13/dist-packages/cctbx_emma_ext.so usr/lib/python3.13/dist-packages/cctbx_french_wilson_ext.so usr/lib/python3.13/dist-packages/cctbx_geometry_ext.so usr/lib/python3.13/dist-packages/cctbx_geometry_restraints_ext.so usr/lib/python3.13/dist-packages/cctbx_maptbx_bcr_bcr_ext.so usr/lib/python3.13/dist-packages/cctbx_maptbx_ext.so usr/lib/python3.13/dist-packages/cctbx_masks_ext.so usr/lib/python3.13/dist-packages/cctbx_math_ext.so usr/lib/python3.13/dist-packages/cctbx_merging_ext.so usr/lib/python3.13/dist-packages/cctbx_miller_ext.so usr/lib/python3.13/dist-packages/cctbx_multipolar_ext.so usr/lib/python3.13/dist-packages/cctbx_orientation_ext.so usr/lib/python3.13/dist-packages/cctbx_sgtbx_asu_ext.so usr/lib/python3.13/dist-packages/cctbx_sgtbx_ext.so usr/lib/python3.13/dist-packages/cctbx_statistics_ext.so usr/lib/python3.13/dist-packages/cctbx_symmetry_search_ext.so usr/lib/python3.13/dist-packages/cctbx_translation_search_ext.so usr/lib/python3.13/dist-packages/cctbx_uctbx_ext.so usr/lib/python3.13/dist-packages/cctbx_xray_ext.so usr/lib/python3.13/dist-packages/cctbx_xray_observations_ext.so usr/lib/python3.13/dist-packages/cma_es_ext.so usr/lib/python3.13/dist-packages/determine_unit_cell_ext.so usr/lib/python3.13/dist-packages/dxtbx_ext.so usr/lib/python3.13/dist-packages/dxtbx_flumpy.so usr/lib/python3.13/dist-packages/dxtbx_format_image_ext.so usr/lib/python3.13/dist-packages/dxtbx_format_nexus_ext.so usr/lib/python3.13/dist-packages/dxtbx_imageset_ext.so usr/lib/python3.13/dist-packages/dxtbx_masking_ext.so usr/lib/python3.13/dist-packages/dxtbx_model_ext.so usr/lib/python3.13/dist-packages/fable_ext.so usr/lib/python3.13/dist-packages/gltbx_fonts_ext.so usr/lib/python3.13/dist-packages/gltbx_gl_ext.so usr/lib/python3.13/dist-packages/gltbx_glu_ext.so usr/lib/python3.13/dist-packages/gltbx_quadrics_ext.so usr/lib/python3.13/dist-packages/gltbx_util_ext.so usr/lib/python3.13/dist-packages/gltbx_viewer_utils_ext.so usr/lib/python3.13/dist-packages/iotbx_ccp4_map_ext.so usr/lib/python3.13/dist-packages/iotbx_cif_ext.so usr/lib/python3.13/dist-packages/iotbx_detectors_bruker_ext.so usr/lib/python3.13/dist-packages/iotbx_detectors_ext.so usr/lib/python3.13/dist-packages/iotbx_dsn6_map_ext.so usr/lib/python3.13/dist-packages/iotbx_dtrek_ext.so usr/lib/python3.13/dist-packages/iotbx_mtz_ext.so usr/lib/python3.13/dist-packages/iotbx_pdb_ext.so usr/lib/python3.13/dist-packages/iotbx_pdb_hierarchy_ext.so usr/lib/python3.13/dist-packages/iotbx_scalepack_ext.so usr/lib/python3.13/dist-packages/iotbx_shelx_ext.so usr/lib/python3.13/dist-packages/iotbx_wildcard_ext.so usr/lib/python3.13/dist-packages/iotbx_xplor_ext.so usr/lib/python3.13/dist-packages/mmtbx_alignment_ext.so usr/lib/python3.13/dist-packages/mmtbx_building_loop_closure_ext.so usr/lib/python3.13/dist-packages/mmtbx_bulk_solvent_ext.so usr/lib/python3.13/dist-packages/mmtbx_den_restraints_ext.so usr/lib/python3.13/dist-packages/mmtbx_dssp_ext.so usr/lib/python3.13/dist-packages/mmtbx_dynamics_ext.so usr/lib/python3.13/dist-packages/mmtbx_f_model_ext.so usr/lib/python3.13/dist-packages/mmtbx_geometry_asa_ext.so usr/lib/python3.13/dist-packages/mmtbx_geometry_clash_ext.so usr/lib/python3.13/dist-packages/mmtbx_geometry_indexing_ext.so usr/lib/python3.13/dist-packages/mmtbx_geometry_primitive_ext.so usr/lib/python3.13/dist-packages/mmtbx_geometry_shared_types_ext.so usr/lib/python3.13/dist-packages/mmtbx_geometry_sphere_surface_sampling_ext.so usr/lib/python3.13/dist-packages/mmtbx_hydrogens_ext.so usr/lib/python3.13/dist-packages/mmtbx_masks_ext.so usr/lib/python3.13/dist-packages/mmtbx_max_lik_ext.so usr/lib/python3.13/dist-packages/mmtbx_mosaic_ext.so usr/lib/python3.13/dist-packages/mmtbx_ncs_cartesian_restraints_ext.so usr/lib/python3.13/dist-packages/mmtbx_ncs_ext.so usr/lib/python3.13/dist-packages/mmtbx_pair_interaction_ext.so usr/lib/python3.13/dist-packages/mmtbx_probe_ext.so usr/lib/python3.13/dist-packages/mmtbx_ramachandran_restraints_ext.so usr/lib/python3.13/dist-packages/mmtbx_reduce_ext.so usr/lib/python3.13/dist-packages/mmtbx_reference_coordinate_ext.so usr/lib/python3.13/dist-packages/mmtbx_rotamer_fit_ext.so usr/lib/python3.13/dist-packages/mmtbx_rsr_ext.so usr/lib/python3.13/dist-packages/mmtbx_scaling_ext.so usr/lib/python3.13/dist-packages/mmtbx_secondary_structure_ext.so usr/lib/python3.13/dist-packages/mmtbx_tls_decompose_ext.so usr/lib/python3.13/dist-packages/mmtbx_tls_ext.so usr/lib/python3.13/dist-packages/mmtbx_tls_optimise_amplitudes_ext.so usr/lib/python3.13/dist-packages/mmtbx_tls_utils_ext.so usr/lib/python3.13/dist-packages/mmtbx_utils_ext.so usr/lib/python3.13/dist-packages/mmtbx_validation_ramachandran_ext.so usr/lib/python3.13/dist-packages/omptbx_ext.so usr/lib/python3.13/dist-packages/regression_test_ext.so usr/lib/python3.13/dist-packages/rstbx_array_family_flex_ext.so usr/lib/python3.13/dist-packages/rstbx_bandpass_ext.so usr/lib/python3.13/dist-packages/rstbx_bpcx_detector_model_ext.so usr/lib/python3.13/dist-packages/rstbx_diffraction_fastbragg_ext.so usr/lib/python3.13/dist-packages/rstbx_ext.so usr/lib/python3.13/dist-packages/rstbx_indexing_api_ext.so usr/lib/python3.13/dist-packages/rstbx_integration_ext.so usr/lib/python3.13/dist-packages/rstbx_simage_ext.so usr/lib/python3.13/dist-packages/rstbx_simulation_ext.so usr/lib/python3.13/dist-packages/rstbx_symmetry_constraints_ext.so usr/lib/python3.13/dist-packages/scitbx_array_family_flex_ext.so usr/lib/python3.13/dist-packages/scitbx_array_family_shared_ext.so usr/lib/python3.13/dist-packages/scitbx_cubicle_neighbors_ext.so usr/lib/python3.13/dist-packages/scitbx_fftpack_ext.so usr/lib/python3.13/dist-packages/scitbx_glmtbx_ext.so usr/lib/python3.13/dist-packages/scitbx_graphics_utils_ext.so usr/lib/python3.13/dist-packages/scitbx_iso_surface_ext.so usr/lib/python3.13/dist-packages/scitbx_lbfgs_ext.so usr/lib/python3.13/dist-packages/scitbx_lbfgsb_ext.so usr/lib/python3.13/dist-packages/scitbx_linalg_ext.so usr/lib/python3.13/dist-packages/scitbx_lstbx_normal_equations_ext.so usr/lib/python3.13/dist-packages/scitbx_math_ext.so usr/lib/python3.13/dist-packages/scitbx_minpack_ext.so usr/lib/python3.13/dist-packages/scitbx_r3_utils_ext.so usr/lib/python3.13/dist-packages/scitbx_random_ext.so usr/lib/python3.13/dist-packages/scitbx_rigid_body_ext.so usr/lib/python3.13/dist-packages/scitbx_sparse_ext.so usr/lib/python3.13/dist-packages/scitbx_stl_map_ext.so usr/lib/python3.13/dist-packages/scitbx_stl_set_ext.so usr/lib/python3.13/dist-packages/scitbx_stl_vector_ext.so usr/lib/python3.13/dist-packages/scitbx_suffixtree_shared_ext.so usr/lib/python3.13/dist-packages/scitbx_suffixtree_single_ext.so usr/lib/python3.13/dist-packages/scitbx_wigner_ext.so usr/lib/python3.13/dist-packages/smtbx_ab_initio_ext.so usr/lib/python3.13/dist-packages/smtbx_array_family_ext.so usr/lib/python3.13/dist-packages/smtbx_refinement_constraints_ext.so usr/lib/python3.13/dist-packages/smtbx_refinement_least_squares_ext.so usr/lib/python3.13/dist-packages/smtbx_refinement_restraints_ext.so usr/lib/python3.13/dist-packages/smtbx_stl_map_ext.so usr/lib/python3.13/dist-packages/smtbx_structure_factors_direct_ext.so usr/lib/python3.13/dist-packages/spotfinder_array_family_flex_ext.so usr/lib/python3.13/dist-packages/spotfinder_distltbx_ext.so usr/lib/python3.13/dist-packages/spotfinder_dxtbx_ext.so usr/lib/python3.13/dist-packages/spotfinder_hough_ext.so usr/lib/python3.13/dist-packages/std_pair_ext.so usr/lib/python3.13/dist-packages/annlib_adaptbx/ usr/lib/python3.13/dist-packages/annlib_adaptbx/__init__.py usr/lib/python3.13/dist-packages/annlib_adaptbx/run_tests.py usr/lib/python3.13/dist-packages/annlib_adaptbx/annlib_adaptbx/ usr/lib/python3.13/dist-packages/annlib_adaptbx/annlib_adaptbx/__init__.py usr/lib/python3.13/dist-packages/annlib_adaptbx/annlib_adaptbx/sample.py usr/lib/python3.13/dist-packages/annlib_adaptbx/annlib_adaptbx/self_match.py usr/lib/python3.13/dist-packages/annlib_adaptbx/source_generators/ usr/lib/python3.13/dist-packages/annlib_adaptbx/source_generators/__init__.py usr/lib/python3.13/dist-packages/annlib_adaptbx/source_generators/generate_all.py usr/lib/python3.13/dist-packages/boost/ usr/lib/python3.13/dist-packages/boost/__init__.py usr/lib/python3.13/dist-packages/boost/optional.py usr/lib/python3.13/dist-packages/boost/python.py usr/lib/python3.13/dist-packages/boost/rational.py usr/lib/python3.13/dist-packages/boost/std_pair.py usr/lib/python3.13/dist-packages/boost/tuple.py usr/lib/python3.13/dist-packages/boost_adaptbx/ usr/lib/python3.13/dist-packages/boost_adaptbx/__init__.py usr/lib/python3.13/dist-packages/boost_adaptbx/hybrid_times.py usr/lib/python3.13/dist-packages/boost_adaptbx/libtbx_refresh.py usr/lib/python3.13/dist-packages/boost_adaptbx/run_tests.py usr/lib/python3.13/dist-packages/boost_adaptbx/boost/ usr/lib/python3.13/dist-packages/boost_adaptbx/boost/__init__.py usr/lib/python3.13/dist-packages/boost_adaptbx/boost/optional.py usr/lib/python3.13/dist-packages/boost_adaptbx/boost/python.py usr/lib/python3.13/dist-packages/boost_adaptbx/boost/rational.py usr/lib/python3.13/dist-packages/boost_adaptbx/boost/std_pair.py usr/lib/python3.13/dist-packages/boost_adaptbx/boost/tuple.py usr/lib/python3.13/dist-packages/boost_adaptbx/command_line/ usr/lib/python3.13/dist-packages/boost_adaptbx/command_line/__init__.py usr/lib/python3.13/dist-packages/boost_adaptbx/command_line/divide_by_zero.py usr/lib/python3.13/dist-packages/boost_adaptbx/command_line/double_overflow.py usr/lib/python3.13/dist-packages/boost_adaptbx/command_line/gcd.py usr/lib/python3.13/dist-packages/boost_adaptbx/command_line/inexact.py usr/lib/python3.13/dist-packages/boost_adaptbx/command_line/int_overflow.py usr/lib/python3.13/dist-packages/boost_adaptbx/command_line/lcm.py usr/lib/python3.13/dist-packages/boost_adaptbx/command_line/nested_cpp_loops_with_check_signals.py usr/lib/python3.13/dist-packages/boost_adaptbx/command_line/segmentation_fault.py usr/lib/python3.13/dist-packages/boost_adaptbx/command_line/show_environ_usage.py usr/lib/python3.13/dist-packages/boost_adaptbx/command_line/show_platform_info.py usr/lib/python3.13/dist-packages/boost_adaptbx/graph/ usr/lib/python3.13/dist-packages/boost_adaptbx/graph/__init__.py usr/lib/python3.13/dist-packages/boost_adaptbx/graph/breadth_first_search.py usr/lib/python3.13/dist-packages/boost_adaptbx/graph/clustering_algorithm.py usr/lib/python3.13/dist-packages/boost_adaptbx/graph/connected_component_algorithm.py usr/lib/python3.13/dist-packages/boost_adaptbx/graph/graph_structure_comparison.py usr/lib/python3.13/dist-packages/boost_adaptbx/graph/maximum_clique.py usr/lib/python3.13/dist-packages/boost_adaptbx/graph/metric.py usr/lib/python3.13/dist-packages/boost_adaptbx/graph/min_cut_max_flow.py usr/lib/python3.13/dist-packages/boost_adaptbx/graph/minimum_cut_enumerate.py usr/lib/python3.13/dist-packages/boost_adaptbx/graph/utility.py usr/lib/python3.13/dist-packages/cbflib_adaptbx/ usr/lib/python3.13/dist-packages/cbflib_adaptbx/__init__.py usr/lib/python3.13/dist-packages/cbflib_adaptbx/copy_files.py usr/lib/python3.13/dist-packages/cbflib_adaptbx/exercise_compression.py usr/lib/python3.13/dist-packages/cbflib_adaptbx/run_tests.py usr/lib/python3.13/dist-packages/cbflib_adaptbx/command_line/ usr/lib/python3.13/dist-packages/cbflib_adaptbx/command_line/__init__.py usr/lib/python3.13/dist-packages/cbflib_adaptbx/command_line/dump.py usr/lib/python3.13/dist-packages/ccp4io_adaptbx/ usr/lib/python3.13/dist-packages/ccp4io_adaptbx/__init__.py usr/lib/python3.13/dist-packages/ccp4io_adaptbx/copy_files.py usr/lib/python3.13/dist-packages/ccp4io_adaptbx/tst.py usr/lib/python3.13/dist-packages/cctbx-2023.12.dist-info/ usr/lib/python3.13/dist-packages/cctbx-2023.12.dist-info/METADATA usr/lib/python3.13/dist-packages/cctbx-2023.12.dist-info/RECORD usr/lib/python3.13/dist-packages/cctbx-2023.12.dist-info/WHEEL usr/lib/python3.13/dist-packages/cctbx-2023.12.dist-info/top_level.txt usr/lib/python3.13/dist-packages/cctbx-2023.12.dist-info/licenses/ usr/lib/python3.13/dist-packages/cctbx-2023.12.dist-info/licenses/LICENSE.txt usr/lib/python3.13/dist-packages/cctbx/ usr/lib/python3.13/dist-packages/cctbx/__init__.py usr/lib/python3.13/dist-packages/cctbx/adptbx.py usr/lib/python3.13/dist-packages/cctbx/anharmonic.py usr/lib/python3.13/dist-packages/cctbx/crystal_orientation.py usr/lib/python3.13/dist-packages/cctbx/dmtbx.py usr/lib/python3.13/dist-packages/cctbx/euclidean_model_matching.py usr/lib/python3.13/dist-packages/cctbx/french_wilson.py usr/lib/python3.13/dist-packages/cctbx/libtbx_refresh.py usr/lib/python3.13/dist-packages/cctbx/math_module.py usr/lib/python3.13/dist-packages/cctbx/multipolar.py usr/lib/python3.13/dist-packages/cctbx/r_free_utils.py usr/lib/python3.13/dist-packages/cctbx/run_examples.py usr/lib/python3.13/dist-packages/cctbx/run_tests.py usr/lib/python3.13/dist-packages/cctbx/statistics.py usr/lib/python3.13/dist-packages/cctbx/symmetry_search.py usr/lib/python3.13/dist-packages/cctbx/translation_search.py usr/lib/python3.13/dist-packages/cctbx/adp_restraints/ usr/lib/python3.13/dist-packages/cctbx/adp_restraints/__init__.py usr/lib/python3.13/dist-packages/cctbx/adp_restraints/energies.py usr/lib/python3.13/dist-packages/cctbx/adp_restraints/flags.py usr/lib/python3.13/dist-packages/cctbx/adp_restraints/tst_ext.py usr/lib/python3.13/dist-packages/cctbx/array_family/ usr/lib/python3.13/dist-packages/cctbx/array_family/__init__.py usr/lib/python3.13/dist-packages/cctbx/array_family/flex.py usr/lib/python3.13/dist-packages/cctbx/command_line/ usr/lib/python3.13/dist-packages/cctbx/command_line/__init__.py usr/lib/python3.13/dist-packages/cctbx/command_line/auto_sharpen.py usr/lib/python3.13/dist-packages/cctbx/command_line/brehm_diederichs.py usr/lib/python3.13/dist-packages/cctbx/command_line/cctbx_test_nightly.py usr/lib/python3.13/dist-packages/cctbx/command_line/cod_select_and_pickle.py usr/lib/python3.13/dist-packages/cctbx/command_line/diffuse.py usr/lib/python3.13/dist-packages/cctbx/command_line/eltbx.show_fp_fdp.py usr/lib/python3.13/dist-packages/cctbx/command_line/euclidean_model_matching.py usr/lib/python3.13/dist-packages/cctbx/command_line/find_reticular_twin_laws.py usr/lib/python3.13/dist-packages/cctbx/command_line/form_factor_query.py usr/lib/python3.13/dist-packages/cctbx/command_line/precession_view.py usr/lib/python3.13/dist-packages/cctbx/command_line/qscore.py usr/lib/python3.13/dist-packages/cctbx/command_line/samosa_join.py usr/lib/python3.13/dist-packages/cctbx/command_line/samosa_scale.py usr/lib/python3.13/dist-packages/cctbx/command_line/segment_and_split_map.py usr/lib/python3.13/dist-packages/cctbx/command_line/space_group_info.py usr/lib/python3.13/dist-packages/cctbx/command_line/structure_factor_timings.py usr/lib/python3.13/dist-packages/cctbx/command_line/subgroups.py usr/lib/python3.13/dist-packages/cctbx/command_line/version.py usr/lib/python3.13/dist-packages/cctbx/command_line/wavelength_units.py usr/lib/python3.13/dist-packages/cctbx/covariance/ usr/lib/python3.13/dist-packages/cctbx/covariance/__init__.py usr/lib/python3.13/dist-packages/cctbx/crystal/ usr/lib/python3.13/dist-packages/cctbx/crystal/__init__.py usr/lib/python3.13/dist-packages/cctbx/crystal/burzlaff_zimmermann_dewolff.py usr/lib/python3.13/dist-packages/cctbx/crystal/close_packing.py usr/lib/python3.13/dist-packages/cctbx/crystal/coordination_sequences.py usr/lib/python3.13/dist-packages/cctbx/crystal/direct_space_asu.py usr/lib/python3.13/dist-packages/cctbx/crystal/distance_based_connectivity.py usr/lib/python3.13/dist-packages/cctbx/crystal/find_best_cell.py usr/lib/python3.13/dist-packages/cctbx/crystal/reindex.py usr/lib/python3.13/dist-packages/cctbx/crystal/super_cell.py usr/lib/python3.13/dist-packages/cctbx/crystal/tst_distance_based_connectivity.py usr/lib/python3.13/dist-packages/cctbx/crystal/tst_ext.py usr/lib/python3.13/dist-packages/cctbx/crystal/tst_super_cell.py usr/lib/python3.13/dist-packages/cctbx/development/ usr/lib/python3.13/dist-packages/cctbx/development/__init__.py usr/lib/python3.13/dist-packages/cctbx/development/approx_amplitude_vs_resolution.py usr/lib/python3.13/dist-packages/cctbx/development/cns_density_modification.py usr/lib/python3.13/dist-packages/cctbx/development/create_models_or_maps.py usr/lib/python3.13/dist-packages/cctbx/development/debug_utils.py usr/lib/python3.13/dist-packages/cctbx/development/direct_or_fft.py usr/lib/python3.13/dist-packages/cctbx/development/electron_density_sampling.py usr/lib/python3.13/dist-packages/cctbx/development/fmt_utils.py usr/lib/python3.13/dist-packages/cctbx/development/github.py usr/lib/python3.13/dist-packages/cctbx/development/make_cns_input.py usr/lib/python3.13/dist-packages/cctbx/development/make_settings.py usr/lib/python3.13/dist-packages/cctbx/development/random_structure.py usr/lib/python3.13/dist-packages/cctbx/development/run_shelx.py usr/lib/python3.13/dist-packages/cctbx/development/run_shelx76.py usr/lib/python3.13/dist-packages/cctbx/development/space_group_option_parser.py usr/lib/python3.13/dist-packages/cctbx/development/structure_factor_utils.py usr/lib/python3.13/dist-packages/cctbx/development/tst_cns_epsilon.py usr/lib/python3.13/dist-packages/cctbx/development/tst_cns_hl.py usr/lib/python3.13/dist-packages/cctbx/eltbx/ usr/lib/python3.13/dist-packages/cctbx/eltbx/__init__.py usr/lib/python3.13/dist-packages/cctbx/eltbx/attenuation_coefficient.py usr/lib/python3.13/dist-packages/cctbx/eltbx/chemical_elements.py usr/lib/python3.13/dist-packages/cctbx/eltbx/covalent_radii.py usr/lib/python3.13/dist-packages/cctbx/eltbx/distance_based_connectivity.py usr/lib/python3.13/dist-packages/cctbx/eltbx/e_scattering.py usr/lib/python3.13/dist-packages/cctbx/eltbx/formula.py usr/lib/python3.13/dist-packages/cctbx/eltbx/fp_fdp.py usr/lib/python3.13/dist-packages/cctbx/eltbx/gaussian_fit.py usr/lib/python3.13/dist-packages/cctbx/eltbx/henke.py usr/lib/python3.13/dist-packages/cctbx/eltbx/icsd_radii.py usr/lib/python3.13/dist-packages/cctbx/eltbx/neutron.py usr/lib/python3.13/dist-packages/cctbx/eltbx/read_custom_scattering_dict.py usr/lib/python3.13/dist-packages/cctbx/eltbx/sasaki.py usr/lib/python3.13/dist-packages/cctbx/eltbx/tiny_pse.py usr/lib/python3.13/dist-packages/cctbx/eltbx/van_der_waals_radii.py usr/lib/python3.13/dist-packages/cctbx/eltbx/wavelengths.py usr/lib/python3.13/dist-packages/cctbx/eltbx/development/ usr/lib/python3.13/dist-packages/cctbx/eltbx/development/__init__.py usr/lib/python3.13/dist-packages/cctbx/eltbx/development/combine_fits.py usr/lib/python3.13/dist-packages/cctbx/eltbx/development/create_n_gaussian_raw_cpp.py usr/lib/python3.13/dist-packages/cctbx/eltbx/development/e_scattering_plots.py usr/lib/python3.13/dist-packages/cctbx/eltbx/development/format_gaussian_fits.py usr/lib/python3.13/dist-packages/cctbx/eltbx/development/hydrogen_plots.py usr/lib/python3.13/dist-packages/cctbx/eltbx/development/itvc_approx.py usr/lib/python3.13/dist-packages/cctbx/eltbx/development/itvc_cross_validation.py usr/lib/python3.13/dist-packages/cctbx/eltbx/development/itvc_fits.py usr/lib/python3.13/dist-packages/cctbx/eltbx/development/itvc_kissel.py usr/lib/python3.13/dist-packages/cctbx/eltbx/development/itvc_section61_io.py usr/lib/python3.13/dist-packages/cctbx/eltbx/development/kissel_fits.py usr/lib/python3.13/dist-packages/cctbx/eltbx/development/kissel_io.py usr/lib/python3.13/dist-packages/cctbx/eltbx/development/rez_rez_grant.py usr/lib/python3.13/dist-packages/cctbx/eltbx/xray_scattering/ usr/lib/python3.13/dist-packages/cctbx/eltbx/xray_scattering/__init__.py usr/lib/python3.13/dist-packages/cctbx/examples/ usr/lib/python3.13/dist-packages/cctbx/examples/__init__.py usr/lib/python3.13/dist-packages/cctbx/examples/adp_symmetry_constraints.py usr/lib/python3.13/dist-packages/cctbx/examples/all_axes.py usr/lib/python3.13/dist-packages/cctbx/examples/analyze_adp.py usr/lib/python3.13/dist-packages/cctbx/examples/ccp4_map.py usr/lib/python3.13/dist-packages/cctbx/examples/change_hand_p31.py usr/lib/python3.13/dist-packages/cctbx/examples/convert_ccp4_symop_lib.py usr/lib/python3.13/dist-packages/cctbx/examples/cr2o3_consistency_checks.py usr/lib/python3.13/dist-packages/cctbx/examples/cr2o3_primitive_cell.py usr/lib/python3.13/dist-packages/cctbx/examples/exp_i_alpha_derivatives.py usr/lib/python3.13/dist-packages/cctbx/examples/f_model_example.py usr/lib/python3.13/dist-packages/cctbx/examples/fft_map_electron_density_around_atom.py usr/lib/python3.13/dist-packages/cctbx/examples/find_distances_using_cpp_objects.py usr/lib/python3.13/dist-packages/cctbx/examples/find_sys_abs_equiv_space_groups.py usr/lib/python3.13/dist-packages/cctbx/examples/g_exp_i_alpha_derivatives.py usr/lib/python3.13/dist-packages/cctbx/examples/g_exp_i_partial_derivatives.py usr/lib/python3.13/dist-packages/cctbx/examples/getting_started.py usr/lib/python3.13/dist-packages/cctbx/examples/hirshfeld_test.py usr/lib/python3.13/dist-packages/cctbx/examples/le_page_1982_vs_lebedev_2005.py usr/lib/python3.13/dist-packages/cctbx/examples/lebedev_2005_perturbation.py usr/lib/python3.13/dist-packages/cctbx/examples/list_non_principal_continuous_shifts.py usr/lib/python3.13/dist-packages/cctbx/examples/location_part.py usr/lib/python3.13/dist-packages/cctbx/examples/map_skewness.py usr/lib/python3.13/dist-packages/cctbx/examples/maximum_subgroups.py usr/lib/python3.13/dist-packages/cctbx/examples/miller_common_sets.py usr/lib/python3.13/dist-packages/cctbx/examples/miller_transform.py usr/lib/python3.13/dist-packages/cctbx/examples/neutron_structure_factors.py usr/lib/python3.13/dist-packages/cctbx/examples/phase_o_phrenia.py usr/lib/python3.13/dist-packages/cctbx/examples/quartz_structure.py usr/lib/python3.13/dist-packages/cctbx/examples/random_f_calc.py usr/lib/python3.13/dist-packages/cctbx/examples/random_puckers.py usr/lib/python3.13/dist-packages/cctbx/examples/reduced_cell_two_folds.py usr/lib/python3.13/dist-packages/cctbx/examples/site_symmetry_constraints.py usr/lib/python3.13/dist-packages/cctbx/examples/site_symmetry_table.py usr/lib/python3.13/dist-packages/cctbx/examples/space_group_matrices.py usr/lib/python3.13/dist-packages/cctbx/examples/space_subgroups.py usr/lib/python3.13/dist-packages/cctbx/examples/steve_collins.py usr/lib/python3.13/dist-packages/cctbx/examples/structure_factor_derivatives.py usr/lib/python3.13/dist-packages/cctbx/examples/structure_factor_derivatives_2.py usr/lib/python3.13/dist-packages/cctbx/examples/structure_factor_derivatives_3.py usr/lib/python3.13/dist-packages/cctbx/examples/structure_factor_derivatives_4.py usr/lib/python3.13/dist-packages/cctbx/examples/sub_group_graph.py usr/lib/python3.13/dist-packages/cctbx/examples/symops_530.py usr/lib/python3.13/dist-packages/cctbx/examples/trigonal_r_vs_tetragonal_i.py usr/lib/python3.13/dist-packages/cctbx/examples/tst_exp_i_alpha_derivatives.py usr/lib/python3.13/dist-packages/cctbx/examples/tst_g_exp_i_alpha_derivatives.py usr/lib/python3.13/dist-packages/cctbx/examples/tst_phase_o_phrenia.py usr/lib/python3.13/dist-packages/cctbx/examples/tst_space_subgroups.py usr/lib/python3.13/dist-packages/cctbx/examples/tst_structure_factor_derivatives.py usr/lib/python3.13/dist-packages/cctbx/examples/tst_structure_factor_derivatives_2.py usr/lib/python3.13/dist-packages/cctbx/examples/tst_structure_factor_derivatives_3.py usr/lib/python3.13/dist-packages/cctbx/examples/tst_structure_factor_derivatives_4.py usr/lib/python3.13/dist-packages/cctbx/examples/unit_cell_minimizers.py usr/lib/python3.13/dist-packages/cctbx/examples/unit_cell_refinement.py usr/lib/python3.13/dist-packages/cctbx/examples/view_fft_map.py usr/lib/python3.13/dist-packages/cctbx/examples/merging/ usr/lib/python3.13/dist-packages/cctbx/examples/merging/__init__.py usr/lib/python3.13/dist-packages/cctbx/examples/merging/data_subset.py usr/lib/python3.13/dist-packages/cctbx/examples/merging/data_utilities.py usr/lib/python3.13/dist-packages/cctbx/examples/merging/show_results.py usr/lib/python3.13/dist-packages/cctbx/examples/merging/sigma_correction.py usr/lib/python3.13/dist-packages/cctbx/examples/merging/task4.py usr/lib/python3.13/dist-packages/cctbx/examples/merging/test1.py usr/lib/python3.13/dist-packages/cctbx/examples/merging/test_cc_half.py usr/lib/python3.13/dist-packages/cctbx/examples/merging/test_levenberg_sparse.py usr/lib/python3.13/dist-packages/cctbx/examples/merging/tst_permutations.py usr/lib/python3.13/dist-packages/cctbx/examples/merging/samosa/ usr/lib/python3.13/dist-packages/cctbx/examples/merging/samosa/__init__.py usr/lib/python3.13/dist-packages/cctbx/examples/merging/samosa/join.py usr/lib/python3.13/dist-packages/cctbx/examples/merging/samosa/per_lattice_postrefinement.py usr/lib/python3.13/dist-packages/cctbx/examples/merging/samosa/scale.py usr/lib/python3.13/dist-packages/cctbx/examples/structure_factor_calculus/ usr/lib/python3.13/dist-packages/cctbx/examples/structure_factor_calculus/__init__.py usr/lib/python3.13/dist-packages/cctbx/examples/structure_factor_calculus/site_derivatives.py usr/lib/python3.13/dist-packages/cctbx/examples/structure_factor_calculus/sites_derivatives.py usr/lib/python3.13/dist-packages/cctbx/examples/structure_factor_calculus/sites_least_squares_derivatives.py usr/lib/python3.13/dist-packages/cctbx/examples/structure_factor_calculus/u_star_derivatives.py usr/lib/python3.13/dist-packages/cctbx/geometry/ usr/lib/python3.13/dist-packages/cctbx/geometry/__init__.py usr/lib/python3.13/dist-packages/cctbx/geometry_restraints/ usr/lib/python3.13/dist-packages/cctbx/geometry_restraints/__init__.py usr/lib/python3.13/dist-packages/cctbx/geometry_restraints/auto_linking_types.py usr/lib/python3.13/dist-packages/cctbx/geometry_restraints/base_geometry.py usr/lib/python3.13/dist-packages/cctbx/geometry_restraints/distance_least_squares.py usr/lib/python3.13/dist-packages/cctbx/geometry_restraints/energies.py usr/lib/python3.13/dist-packages/cctbx/geometry_restraints/flags.py usr/lib/python3.13/dist-packages/cctbx/geometry_restraints/lbfgs.py usr/lib/python3.13/dist-packages/cctbx/geometry_restraints/linking_class.py usr/lib/python3.13/dist-packages/cctbx/geometry_restraints/manager.py usr/lib/python3.13/dist-packages/cctbx/geometry_restraints/process_nonbonded_proxies.py usr/lib/python3.13/dist-packages/cctbx/geometry_restraints/standard_cif_links.py usr/lib/python3.13/dist-packages/cctbx/geometry_restraints/tst_angle_derivs.py usr/lib/python3.13/dist-packages/cctbx/geometry_restraints/tst_ext.py usr/lib/python3.13/dist-packages/cctbx/geometry_restraints/tst_motif.py usr/lib/python3.13/dist-packages/cctbx/geometry_restraints/tst_process_nonbonded_proxies.py usr/lib/python3.13/dist-packages/cctbx/geometry_restraints/tst_proxy_registry.py usr/lib/python3.13/dist-packages/cctbx/macro_mol/ usr/lib/python3.13/dist-packages/cctbx/macro_mol/__init__.py usr/lib/python3.13/dist-packages/cctbx/macro_mol/rotation_parameters.py usr/lib/python3.13/dist-packages/cctbx/maptbx/ usr/lib/python3.13/dist-packages/cctbx/maptbx/__init__.py usr/lib/python3.13/dist-packages/cctbx/maptbx/auto_sharpen.py usr/lib/python3.13/dist-packages/cctbx/maptbx/box.py usr/lib/python3.13/dist-packages/cctbx/maptbx/fsc_curve.py usr/lib/python3.13/dist-packages/cctbx/maptbx/map_symmetry.py usr/lib/python3.13/dist-packages/cctbx/maptbx/mask.py usr/lib/python3.13/dist-packages/cctbx/maptbx/mem.py usr/lib/python3.13/dist-packages/cctbx/maptbx/minimization.py usr/lib/python3.13/dist-packages/cctbx/maptbx/prepare_map_for_docking.py usr/lib/python3.13/dist-packages/cctbx/maptbx/prepare_map_for_refinement.py usr/lib/python3.13/dist-packages/cctbx/maptbx/qscore.py usr/lib/python3.13/dist-packages/cctbx/maptbx/real_space_refinement_simple.py usr/lib/python3.13/dist-packages/cctbx/maptbx/refine_scales_errors.py usr/lib/python3.13/dist-packages/cctbx/maptbx/refine_sharpening.py usr/lib/python3.13/dist-packages/cctbx/maptbx/resolution_from_map_and_model.py usr/lib/python3.13/dist-packages/cctbx/maptbx/segment_and_split_map.py usr/lib/python3.13/dist-packages/cctbx/maptbx/tst_asymmetric_map.py usr/lib/python3.13/dist-packages/cctbx/maptbx/tst_atom_curves.py usr/lib/python3.13/dist-packages/cctbx/maptbx/tst_atom_radius_as_central_peak_width.py usr/lib/python3.13/dist-packages/cctbx/maptbx/tst_bcr.py usr/lib/python3.13/dist-packages/cctbx/maptbx/tst_ccp.py usr/lib/python3.13/dist-packages/cctbx/maptbx/tst_get_percentile_cutoffs.py usr/lib/python3.13/dist-packages/cctbx/maptbx/tst_interpolation.py usr/lib/python3.13/dist-packages/cctbx/maptbx/tst_interpolation_2.py usr/lib/python3.13/dist-packages/cctbx/maptbx/tst_loft.py usr/lib/python3.13/dist-packages/cctbx/maptbx/tst_map_peak_3d_as_2d.py usr/lib/python3.13/dist-packages/cctbx/maptbx/tst_mask.py usr/lib/python3.13/dist-packages/cctbx/maptbx/tst_peak_volume_estimate.py usr/lib/python3.13/dist-packages/cctbx/maptbx/tst_qscore.py usr/lib/python3.13/dist-packages/cctbx/maptbx/tst_real_space_refinement_simple.py usr/lib/python3.13/dist-packages/cctbx/maptbx/tst_resolution_from_map_and_model.py usr/lib/python3.13/dist-packages/cctbx/maptbx/tst_target_and_gradients.py usr/lib/python3.13/dist-packages/cctbx/maptbx/bcr/ usr/lib/python3.13/dist-packages/cctbx/maptbx/bcr/__init__.py usr/lib/python3.13/dist-packages/cctbx/maptbx/bcr/bcr.py usr/lib/python3.13/dist-packages/cctbx/maptbx/bcr/compute_tables.py usr/lib/python3.13/dist-packages/cctbx/maptbx/bcr/qmap.py usr/lib/python3.13/dist-packages/cctbx/maptbx/bcr/tst_adp_refine.py usr/lib/python3.13/dist-packages/cctbx/maptbx/bcr/tst_example.py usr/lib/python3.13/dist-packages/cctbx/maptbx/bcr/tst_qmap_02.py usr/lib/python3.13/dist-packages/cctbx/maptbx/bcr/tst_table.py usr/lib/python3.13/dist-packages/cctbx/maptbx/bcr/tst_two_atoms.py usr/lib/python3.13/dist-packages/cctbx/maptbx/bcr/tst_vrm.py usr/lib/python3.13/dist-packages/cctbx/maptbx/bcr/tst_vrm2.py usr/lib/python3.13/dist-packages/cctbx/masks/ usr/lib/python3.13/dist-packages/cctbx/masks/__init__.py usr/lib/python3.13/dist-packages/cctbx/merging/ usr/lib/python3.13/dist-packages/cctbx/merging/__init__.py usr/lib/python3.13/dist-packages/cctbx/merging/brehm_diederichs.py usr/lib/python3.13/dist-packages/cctbx/miller/ usr/lib/python3.13/dist-packages/cctbx/miller/__init__.py usr/lib/python3.13/dist-packages/cctbx/miller/display.py usr/lib/python3.13/dist-packages/cctbx/miller/reindexing.py usr/lib/python3.13/dist-packages/cctbx/miller/tst_map_to_asu_isym.py usr/lib/python3.13/dist-packages/cctbx/miller/tst_reindexing.py usr/lib/python3.13/dist-packages/cctbx/neutron/ usr/lib/python3.13/dist-packages/cctbx/neutron/__init__.py usr/lib/python3.13/dist-packages/cctbx/omz/ usr/lib/python3.13/dist-packages/cctbx/omz/__init__.py usr/lib/python3.13/dist-packages/cctbx/omz/bfgs.py usr/lib/python3.13/dist-packages/cctbx/omz/cif_refine.py usr/lib/python3.13/dist-packages/cctbx/omz/cod_refine.py usr/lib/python3.13/dist-packages/cctbx/omz/cod_select_and_pickle.py usr/lib/python3.13/dist-packages/cctbx/omz/dev.py usr/lib/python3.13/dist-packages/cctbx/omz/eval_iso_vs_refined.py usr/lib/python3.13/dist-packages/cctbx/omz/pdb_dev.py usr/lib/python3.13/dist-packages/cctbx/omz/tardy_adaptor.py usr/lib/python3.13/dist-packages/cctbx/omz/tst_bfgs.py usr/lib/python3.13/dist-packages/cctbx/omz/tst_dev.py usr/lib/python3.13/dist-packages/cctbx/regression/ usr/lib/python3.13/dist-packages/cctbx/regression/__init__.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_adp_aniso_restraints.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_adp_constraints.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_adp_constraints_cartesian.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_amplitude_normalisation.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_change_basis.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_connectivity.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_connectivity_allsym.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_coordination_sequences.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_create_models_or_maps.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_crystal.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_crystal_asu_clusters.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_crystal_close_packing.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_diffuse.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_direct_scaling.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_direct_space_asu.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_emma.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_expand_to_p1.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_f_model.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_fast_nv1995.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_fcalc_fft_stability.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_find_best_cell.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_fourier_transform_real_part_at_x.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_french_wilson.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_geometry_restraints.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_geometry_restraints_2.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_geometry_restraints_lbfgs.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_grm_modifications.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_grm_modifications_rm.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_grm_pickling.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_grouped_data.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_itvb_2001_table_a1427_hall_symbols.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_krivy_gruber.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_loc_res.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_map_is_periodic.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_map_weights_for_symmetry_summation.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_maptbx_box.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_maptbx_mask.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_maptbx_structure_factors.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_math_module.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_mem.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_mem_2.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_miller.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_miller_data_manipulation.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_miller_double_step_filtration.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_miller_fft_map.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_miller_lookup_utils.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_miller_merge_equivalents.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_miller_statistics.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_niggli_reduction_cpp.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_pair_asu_table.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_pointgroup_tools.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_prepare_map_for_docking.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_r_free_utils.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_reciprocal_space_asu.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_refine_xray_curvs.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_reflection_statistics.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_sampled_model_density.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_sf_low_res_accuracy.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_sgtbx.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_sgtbx_denominators.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_sgtbx_harker.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_sgtbx_lattice_symmetry.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_sgtbx_site_constraints.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_sgtbx_special_op_simplifier.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_sgtbx_subgroups.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_sgtbx_tidy_pickling.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_show_cosets.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_space_group_type_tidy_cb_op_t.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_sphericity.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_statistics_graphs.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_triplet_generator.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_twin_target.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_wavelength_units.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_web_change_basis.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_weighting_schemes.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_wilson_plot.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_xray.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_xray_derivatives.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_xray_fast_gradients.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_xray_minimization.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_xray_minimization_failure.py usr/lib/python3.13/dist-packages/cctbx/regression/tst_xray_target_functors.py usr/lib/python3.13/dist-packages/cctbx/sgtbx/ usr/lib/python3.13/dist-packages/cctbx/sgtbx/__init__.py usr/lib/python3.13/dist-packages/cctbx/sgtbx/bravais_types.py usr/lib/python3.13/dist-packages/cctbx/sgtbx/cosets.py usr/lib/python3.13/dist-packages/cctbx/sgtbx/harker.py usr/lib/python3.13/dist-packages/cctbx/sgtbx/lattice_symmetry.py usr/lib/python3.13/dist-packages/cctbx/sgtbx/literal_description.py usr/lib/python3.13/dist-packages/cctbx/sgtbx/plane_groups.py usr/lib/python3.13/dist-packages/cctbx/sgtbx/pointgroup_tools.py usr/lib/python3.13/dist-packages/cctbx/sgtbx/rational_matrices_point_groups.py usr/lib/python3.13/dist-packages/cctbx/sgtbx/reticular_pg_tools.py usr/lib/python3.13/dist-packages/cctbx/sgtbx/reticular_twin_laws.py usr/lib/python3.13/dist-packages/cctbx/sgtbx/show_cosets.py usr/lib/python3.13/dist-packages/cctbx/sgtbx/sub_lattice_tools.py usr/lib/python3.13/dist-packages/cctbx/sgtbx/subgroups.py usr/lib/python3.13/dist-packages/cctbx/sgtbx/symbol_confidence.py usr/lib/python3.13/dist-packages/cctbx/sgtbx/sys_abs_equiv.py usr/lib/python3.13/dist-packages/cctbx/sgtbx/direct_space_asu/ usr/lib/python3.13/dist-packages/cctbx/sgtbx/direct_space_asu/__init__.py usr/lib/python3.13/dist-packages/cctbx/sgtbx/direct_space_asu/check_redundancies.py usr/lib/python3.13/dist-packages/cctbx/sgtbx/direct_space_asu/cut_plane.py usr/lib/python3.13/dist-packages/cctbx/sgtbx/direct_space_asu/facet_analysis.py usr/lib/python3.13/dist-packages/cctbx/sgtbx/direct_space_asu/plane_group_reference_table.py usr/lib/python3.13/dist-packages/cctbx/sgtbx/direct_space_asu/reference_table.py usr/lib/python3.13/dist-packages/cctbx/sgtbx/direct_space_asu/short_cuts.py usr/lib/python3.13/dist-packages/cctbx/sgtbx/direct_space_asu/proto/ usr/lib/python3.13/dist-packages/cctbx/sgtbx/direct_space_asu/proto/__init__.py usr/lib/python3.13/dist-packages/cctbx/sgtbx/direct_space_asu/proto/generate_cpp_asu_table.py usr/lib/python3.13/dist-packages/cctbx/sgtbx/direct_space_asu/proto/tst_asu.py usr/lib/python3.13/dist-packages/cctbx/source_generators/ usr/lib/python3.13/dist-packages/cctbx/source_generators/__init__.py usr/lib/python3.13/dist-packages/cctbx/source_generators/flex_fwd_h.py usr/lib/python3.13/dist-packages/cctbx/source_generators/eltbx/ usr/lib/python3.13/dist-packages/cctbx/source_generators/eltbx/__init__.py usr/lib/python3.13/dist-packages/cctbx/source_generators/eltbx/generate_henke_cpp.py usr/lib/python3.13/dist-packages/cctbx/source_generators/eltbx/generate_sasaki_cpp.py usr/lib/python3.13/dist-packages/cctbx/uctbx/ usr/lib/python3.13/dist-packages/cctbx/uctbx/__init__.py usr/lib/python3.13/dist-packages/cctbx/uctbx/gruber_1973.py usr/lib/python3.13/dist-packages/cctbx/uctbx/gruber_1973_table_1.py usr/lib/python3.13/dist-packages/cctbx/uctbx/krivy_gruber_1976.py usr/lib/python3.13/dist-packages/cctbx/uctbx/reduction_base.py usr/lib/python3.13/dist-packages/cctbx/uctbx/determine_unit_cell/ usr/lib/python3.13/dist-packages/cctbx/uctbx/determine_unit_cell/__init__.py usr/lib/python3.13/dist-packages/cctbx/web/ usr/lib/python3.13/dist-packages/cctbx/web/__init__.py usr/lib/python3.13/dist-packages/cctbx/web/all_axes.py usr/lib/python3.13/dist-packages/cctbx/web/browse_settings.py usr/lib/python3.13/dist-packages/cctbx/web/cgi_utils.py usr/lib/python3.13/dist-packages/cctbx/web/change_basis.py usr/lib/python3.13/dist-packages/cctbx/web/change_hand.py usr/lib/python3.13/dist-packages/cctbx/web/change_setting.py usr/lib/python3.13/dist-packages/cctbx/web/dispatcher.py usr/lib/python3.13/dist-packages/cctbx/web/emma.py usr/lib/python3.13/dist-packages/cctbx/web/explore_symmetry.py usr/lib/python3.13/dist-packages/cctbx/web/frac_cart.py usr/lib/python3.13/dist-packages/cctbx/web/io_utils.py usr/lib/python3.13/dist-packages/cctbx/web/iotbx_cif_validate.py usr/lib/python3.13/dist-packages/cctbx/web/lattice_symmetry.py usr/lib/python3.13/dist-packages/cctbx/web/libtbx_help.py usr/lib/python3.13/dist-packages/cctbx/web/multiple_cell.py usr/lib/python3.13/dist-packages/cctbx/web/phase_o_phrenia.py usr/lib/python3.13/dist-packages/cctbx/web/replay.py usr/lib/python3.13/dist-packages/cctbx/web/shelx.py usr/lib/python3.13/dist-packages/cctbx/web/structure_factors.py usr/lib/python3.13/dist-packages/cctbx/web/structure_factors_pdb.py usr/lib/python3.13/dist-packages/cctbx/web/wyckoff.py usr/lib/python3.13/dist-packages/cctbx/web/asu_gallery/ usr/lib/python3.13/dist-packages/cctbx/web/asu_gallery/__init__.py usr/lib/python3.13/dist-packages/cctbx/web/asu_gallery/guide_to_notation.py usr/lib/python3.13/dist-packages/cctbx/web/asu_gallery/jv_asu.py usr/lib/python3.13/dist-packages/cctbx/web/asu_gallery/jv_index.py usr/lib/python3.13/dist-packages/cctbx/web/asu_gallery/jvx.py usr/lib/python3.13/dist-packages/cctbx/web/asu_gallery/web_links.py usr/lib/python3.13/dist-packages/cctbx/xray/ usr/lib/python3.13/dist-packages/cctbx/xray/__init__.py usr/lib/python3.13/dist-packages/cctbx/xray/ext.py usr/lib/python3.13/dist-packages/cctbx/xray/minimization.py usr/lib/python3.13/dist-packages/cctbx/xray/observation_types.py usr/lib/python3.13/dist-packages/cctbx/xray/scatterer.py usr/lib/python3.13/dist-packages/cctbx/xray/structure.py usr/lib/python3.13/dist-packages/cctbx/xray/target_functors.py usr/lib/python3.13/dist-packages/cctbx/xray/weighting_schemes.py usr/lib/python3.13/dist-packages/cctbx/xray/observations/ usr/lib/python3.13/dist-packages/cctbx/xray/observations/__init__.py usr/lib/python3.13/dist-packages/cctbx/xray/observations/tst_observations.py usr/lib/python3.13/dist-packages/cctbx/xray/structure_factors/ usr/lib/python3.13/dist-packages/cctbx/xray/structure_factors/__init__.py usr/lib/python3.13/dist-packages/cctbx/xray/structure_factors/algorithm.py usr/lib/python3.13/dist-packages/cctbx/xray/structure_factors/from_scatterers.py usr/lib/python3.13/dist-packages/cctbx/xray/structure_factors/from_scatterers_direct.py usr/lib/python3.13/dist-packages/cctbx/xray/structure_factors/from_scatterers_direct_parallel.py usr/lib/python3.13/dist-packages/cctbx/xray/structure_factors/from_scatterers_fft.py usr/lib/python3.13/dist-packages/cctbx/xray/structure_factors/global_counters.py usr/lib/python3.13/dist-packages/cctbx/xray/structure_factors/gradient_flags.py usr/lib/python3.13/dist-packages/cctbx/xray/structure_factors/gradients.py usr/lib/python3.13/dist-packages/cctbx/xray/structure_factors/gradients_base.py usr/lib/python3.13/dist-packages/cctbx/xray/structure_factors/gradients_direct.py usr/lib/python3.13/dist-packages/cctbx/xray/structure_factors/gradients_fft.py usr/lib/python3.13/dist-packages/cctbx/xray/structure_factors/manager.py usr/lib/python3.13/dist-packages/cctbx/xray/structure_factors/misc.py usr/lib/python3.13/dist-packages/cctbx/xray/targets/ usr/lib/python3.13/dist-packages/cctbx/xray/targets/__init__.py usr/lib/python3.13/dist-packages/cctbx/xray/targets/r1.py usr/lib/python3.13/dist-packages/cctbx/xray/targets/tst_r1.py usr/lib/python3.13/dist-packages/cctbx/xray/targets/tst_shelxl_wght_ls.py usr/lib/python3.13/dist-packages/cctbx_website/ usr/lib/python3.13/dist-packages/cctbx_website/__init__.py usr/lib/python3.13/dist-packages/cctbx_website/libtbx_refresh.py usr/lib/python3.13/dist-packages/cctbx_website/run_tests.py usr/lib/python3.13/dist-packages/cctbx_website/command_line/ usr/lib/python3.13/dist-packages/cctbx_website/command_line/__init__.py usr/lib/python3.13/dist-packages/cctbx_website/command_line/comment_to_docstring.py usr/lib/python3.13/dist-packages/cctbx_website/command_line/edit_for_boost.py usr/lib/python3.13/dist-packages/cctbx_website/command_line/edit_html.py usr/lib/python3.13/dist-packages/cctbx_website/command_line/extract_script_from_html_cctbx_doc.py usr/lib/python3.13/dist-packages/cctbx_website/command_line/run_pdoc_cctbx_api.py usr/lib/python3.13/dist-packages/cctbx_website/command_line/tst_comment_to_docstring.py usr/lib/python3.13/dist-packages/cctbx_website/regression/ usr/lib/python3.13/dist-packages/cctbx_website/regression/__init__.py usr/lib/python3.13/dist-packages/cctbx_website/regression/exercise.py usr/lib/python3.13/dist-packages/cctbx_website/regression/tst_10_doc_programming_tips_1.py usr/lib/python3.13/dist-packages/cctbx_website/regression/tst_11_script_1.py usr/lib/python3.13/dist-packages/cctbx_website/regression/tst_12_script_compare_ss.py usr/lib/python3.13/dist-packages/cctbx_website/regression/tst_13_script_ideal_ss.py usr/lib/python3.13/dist-packages/cctbx_website/regression/tst_14_script_lbfgs_no_curvature.py usr/lib/python3.13/dist-packages/cctbx_website/regression/tst_15_doc_models_hierarchy.py usr/lib/python3.13/dist-packages/cctbx_website/regression/tst_16_script_lbfgs_with_curvature.py usr/lib/python3.13/dist-packages/cctbx_website/regression/tst_17_script_rfactors.py usr/lib/python3.13/dist-packages/cctbx_website/regression/tst_18_doc_programming_tips_2.py usr/lib/python3.13/dist-packages/cctbx_website/regression/tst_19_doc_programming_tips_3.py usr/lib/python3.13/dist-packages/cctbx_website/regression/tst_1_template.py usr/lib/python3.13/dist-packages/cctbx_website/regression/tst_2_doc_hlo_intro.py usr/lib/python3.13/dist-packages/cctbx_website/regression/tst_3_doc_hlo_model_manager.py usr/lib/python3.13/dist-packages/cctbx_website/regression/tst_4_doc_hlo_data_manager.py usr/lib/python3.13/dist-packages/cctbx_website/regression/tst_5_doc_hlo_map_manager.py usr/lib/python3.13/dist-packages/cctbx_website/regression/tst_6_doc_hlo_model_map_manager.py usr/lib/python3.13/dist-packages/cctbx_website/regression/tst_7_doc_low_flex_advanced.py usr/lib/python3.13/dist-packages/cctbx_website/regression/tst_8_doc_maps_intro.py usr/lib/python3.13/dist-packages/cctbx_website/regression/tst_9_doc_maps_boxing.py usr/lib/python3.13/dist-packages/cctbx_website/regression/tst_py_from_html.py usr/lib/python3.13/dist-packages/cma_es/ usr/lib/python3.13/dist-packages/cma_es/__init__.py usr/lib/python3.13/dist-packages/cma_es/cma_es_interface.py usr/lib/python3.13/dist-packages/cma_es/run_tests.py usr/lib/python3.13/dist-packages/cma_es/tst_cma_es.py usr/lib/python3.13/dist-packages/cootbx/ usr/lib/python3.13/dist-packages/cootbx/__init__.py usr/lib/python3.13/dist-packages/cootbx/hydrogens_button.py usr/lib/python3.13/dist-packages/cootbx/interactive_edit.py usr/lib/python3.13/dist-packages/cootbx/ligand_checklist.py usr/lib/python3.13/dist-packages/cootbx/simple_zoom_list.py usr/lib/python3.13/dist-packages/cootbx/validation_lists.py usr/lib/python3.13/dist-packages/cootbx/view_refinement.py 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usr/lib/python3.13/dist-packages/dxtbx/dxtbx_format_image_ext.pyi usr/lib/python3.13/dist-packages/dxtbx/dxtbx_format_nexus_ext.pyi usr/lib/python3.13/dist-packages/dxtbx/dxtbx_imageset_ext.pyi usr/lib/python3.13/dist-packages/dxtbx/dxtbx_masking_ext.pyi usr/lib/python3.13/dist-packages/dxtbx/dxtbx_model_ext.pyi usr/lib/python3.13/dist-packages/dxtbx/error.h usr/lib/python3.13/dist-packages/dxtbx/ext.py usr/lib/python3.13/dist-packages/dxtbx/filecache.py usr/lib/python3.13/dist-packages/dxtbx/filecache_controller.py usr/lib/python3.13/dist-packages/dxtbx/flumpy.py usr/lib/python3.13/dist-packages/dxtbx/imageset.h usr/lib/python3.13/dist-packages/dxtbx/imageset.py usr/lib/python3.13/dist-packages/dxtbx/py.typed usr/lib/python3.13/dist-packages/dxtbx/sequence_filenames.py usr/lib/python3.13/dist-packages/dxtbx/version.py usr/lib/python3.13/dist-packages/dxtbx/array_family/ usr/lib/python3.13/dist-packages/dxtbx/array_family/flex_table.h 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usr/lib/python3.13/dist-packages/gltbx/generate_fonts_ucs_cpp.py usr/lib/python3.13/dist-packages/gltbx/generate_functions_bpl.py usr/lib/python3.13/dist-packages/gltbx/gl.py usr/lib/python3.13/dist-packages/gltbx/gl_managed.py usr/lib/python3.13/dist-packages/gltbx/glu.py usr/lib/python3.13/dist-packages/gltbx/images.py usr/lib/python3.13/dist-packages/gltbx/libtbx_refresh.py usr/lib/python3.13/dist-packages/gltbx/quadrics.py usr/lib/python3.13/dist-packages/gltbx/run_tests.py usr/lib/python3.13/dist-packages/gltbx/tst.py usr/lib/python3.13/dist-packages/gltbx/tst_ellipsoids.py usr/lib/python3.13/dist-packages/gltbx/tst_fonts.py usr/lib/python3.13/dist-packages/gltbx/tst_viewer_utils.py usr/lib/python3.13/dist-packages/gltbx/util.py usr/lib/python3.13/dist-packages/gltbx/viewer_utils.py usr/lib/python3.13/dist-packages/gltbx/wx_cube.py usr/lib/python3.13/dist-packages/gltbx/wx_ellipsoids_test.py usr/lib/python3.13/dist-packages/gltbx/wx_motion_on_tab.py usr/lib/python3.13/dist-packages/gltbx/wx_scene.py usr/lib/python3.13/dist-packages/gltbx/wx_viewer.py usr/lib/python3.13/dist-packages/gltbx/wx_viewer_example.py usr/lib/python3.13/dist-packages/gltbx/wx_viewer_leapmotion.py usr/lib/python3.13/dist-packages/gltbx/wx_viewers_images.py usr/lib/python3.13/dist-packages/gltbx/command_line/ usr/lib/python3.13/dist-packages/gltbx/command_line/__init__.py usr/lib/python3.13/dist-packages/gltbx/command_line/try_imports.py usr/lib/python3.13/dist-packages/iotbx/ usr/lib/python3.13/dist-packages/iotbx/__init__.py usr/lib/python3.13/dist-packages/iotbx/builders.py usr/lib/python3.13/dist-packages/iotbx/builders_depending_on_smtbx.py usr/lib/python3.13/dist-packages/iotbx/cif_mtz_data_labels.py usr/lib/python3.13/dist-packages/iotbx/cli_parser.py usr/lib/python3.13/dist-packages/iotbx/crystal_symmetry_from_any.py usr/lib/python3.13/dist-packages/iotbx/csv_utils.py usr/lib/python3.13/dist-packages/iotbx/data_plots.py usr/lib/python3.13/dist-packages/iotbx/extract_xtal_data.py usr/lib/python3.13/dist-packages/iotbx/file_reader.py usr/lib/python3.13/dist-packages/iotbx/format.py usr/lib/python3.13/dist-packages/iotbx/libtbx_refresh.py usr/lib/python3.13/dist-packages/iotbx/logfiles.py usr/lib/python3.13/dist-packages/iotbx/map_manager.py usr/lib/python3.13/dist-packages/iotbx/map_model_manager.py usr/lib/python3.13/dist-packages/iotbx/map_tools.py usr/lib/python3.13/dist-packages/iotbx/merging_statistics.py usr/lib/python3.13/dist-packages/iotbx/mtrix_biomt.py usr/lib/python3.13/dist-packages/iotbx/option_parser.py usr/lib/python3.13/dist-packages/iotbx/phases.py usr/lib/python3.13/dist-packages/iotbx/phil.py usr/lib/python3.13/dist-packages/iotbx/poscar.py usr/lib/python3.13/dist-packages/iotbx/pymol.py usr/lib/python3.13/dist-packages/iotbx/ranges.py usr/lib/python3.13/dist-packages/iotbx/reflection_file_converter.py usr/lib/python3.13/dist-packages/iotbx/reflection_file_editor.py usr/lib/python3.13/dist-packages/iotbx/reflection_file_reader.py usr/lib/python3.13/dist-packages/iotbx/reflection_file_utils.py usr/lib/python3.13/dist-packages/iotbx/run_tests.py usr/lib/python3.13/dist-packages/iotbx/simple_parser.py usr/lib/python3.13/dist-packages/iotbx/symmetry.py usr/lib/python3.13/dist-packages/iotbx/table_one.py usr/lib/python3.13/dist-packages/iotbx/wildcard.py usr/lib/python3.13/dist-packages/iotbx/PrettyPrint/ usr/lib/python3.13/dist-packages/iotbx/PrettyPrint/__init__.py usr/lib/python3.13/dist-packages/iotbx/PrettyPrint/tables.py usr/lib/python3.13/dist-packages/iotbx/bioinformatics/ usr/lib/python3.13/dist-packages/iotbx/bioinformatics/__init__.py usr/lib/python3.13/dist-packages/iotbx/bioinformatics/alignment_as_hsearch.py usr/lib/python3.13/dist-packages/iotbx/bioinformatics/ebi_wu_blast_xml.py usr/lib/python3.13/dist-packages/iotbx/bioinformatics/homologues.py usr/lib/python3.13/dist-packages/iotbx/bioinformatics/local_blast.py usr/lib/python3.13/dist-packages/iotbx/bioinformatics/ncbi_blast_xml.py usr/lib/python3.13/dist-packages/iotbx/bioinformatics/pdb_info.py usr/lib/python3.13/dist-packages/iotbx/bioinformatics/pubmed.py usr/lib/python3.13/dist-packages/iotbx/bioinformatics/structure.py usr/lib/python3.13/dist-packages/iotbx/bioinformatics/xmlbuild.py usr/lib/python3.13/dist-packages/iotbx/ccp4_map/ usr/lib/python3.13/dist-packages/iotbx/ccp4_map/__init__.py usr/lib/python3.13/dist-packages/iotbx/ccp4_map/crystal_symmetry_from_ccp4_map.py usr/lib/python3.13/dist-packages/iotbx/ccp4_map/tst.py usr/lib/python3.13/dist-packages/iotbx/cif/ usr/lib/python3.13/dist-packages/iotbx/cif/__init__.py usr/lib/python3.13/dist-packages/iotbx/cif/builders.py usr/lib/python3.13/dist-packages/iotbx/cif/citations.py usr/lib/python3.13/dist-packages/iotbx/cif/cod_tools.py usr/lib/python3.13/dist-packages/iotbx/cif/crystal_symmetry_from_cif.py usr/lib/python3.13/dist-packages/iotbx/cif/errors.py usr/lib/python3.13/dist-packages/iotbx/cif/geometry.py usr/lib/python3.13/dist-packages/iotbx/cif/model.py usr/lib/python3.13/dist-packages/iotbx/cif/restraint_file_merge.py usr/lib/python3.13/dist-packages/iotbx/cif/restraints.py usr/lib/python3.13/dist-packages/iotbx/cif/validation.py usr/lib/python3.13/dist-packages/iotbx/cns/ usr/lib/python3.13/dist-packages/iotbx/cns/__init__.py usr/lib/python3.13/dist-packages/iotbx/cns/crystal_symmetry_from_inp.py usr/lib/python3.13/dist-packages/iotbx/cns/crystal_symmetry_from_sdb.py usr/lib/python3.13/dist-packages/iotbx/cns/crystal_symmetry_utils.py usr/lib/python3.13/dist-packages/iotbx/cns/index_fobs_sigma_reader.py usr/lib/python3.13/dist-packages/iotbx/cns/miller_array.py usr/lib/python3.13/dist-packages/iotbx/cns/pdb_remarks.py usr/lib/python3.13/dist-packages/iotbx/cns/reflection_reader.py usr/lib/python3.13/dist-packages/iotbx/cns/sdb_reader.py usr/lib/python3.13/dist-packages/iotbx/cns/sdb_writer.py usr/lib/python3.13/dist-packages/iotbx/cns/space_group_symbols.py usr/lib/python3.13/dist-packages/iotbx/cns/tst_cns.py usr/lib/python3.13/dist-packages/iotbx/cns/xray_structure.py usr/lib/python3.13/dist-packages/iotbx/command_line/ usr/lib/python3.13/dist-packages/iotbx/command_line/__init__.py usr/lib/python3.13/dist-packages/iotbx/command_line/biomt_reconstruction.py usr/lib/python3.13/dist-packages/iotbx/command_line/blast_pdb.py usr/lib/python3.13/dist-packages/iotbx/command_line/build_phil_cache.py usr/lib/python3.13/dist-packages/iotbx/command_line/cbf_read.py usr/lib/python3.13/dist-packages/iotbx/command_line/cif.as_miller_arrays.py usr/lib/python3.13/dist-packages/iotbx/command_line/cif.as_xray_structure.py usr/lib/python3.13/dist-packages/iotbx/command_line/cif.validate.py usr/lib/python3.13/dist-packages/iotbx/command_line/cif_as_pdb.py usr/lib/python3.13/dist-packages/iotbx/command_line/cns.reflection_reader.py 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usr/lib/python3.13/dist-packages/iotbx/command_line/file_reader.py usr/lib/python3.13/dist-packages/iotbx/command_line/flip_symmetric_amino_acids.py usr/lib/python3.13/dist-packages/iotbx/command_line/french_wilson.py usr/lib/python3.13/dist-packages/iotbx/command_line/get_pubmed_citation.py usr/lib/python3.13/dist-packages/iotbx/command_line/lattice_symmetry.py usr/lib/python3.13/dist-packages/iotbx/command_line/merging_statistics.py usr/lib/python3.13/dist-packages/iotbx/command_line/mtrix_reconstruction.py usr/lib/python3.13/dist-packages/iotbx/command_line/mtz.dump.py usr/lib/python3.13/dist-packages/iotbx/command_line/mtz_as_cif.py usr/lib/python3.13/dist-packages/iotbx/command_line/patterson_map.py usr/lib/python3.13/dist-packages/iotbx/command_line/pdb.as_xray_structure.py usr/lib/python3.13/dist-packages/iotbx/command_line/pdb.b_factor_stats.py usr/lib/python3.13/dist-packages/iotbx/command_line/pdb.box_around_molecule.py usr/lib/python3.13/dist-packages/iotbx/command_line/pdb.hierarchy.py usr/lib/python3.13/dist-packages/iotbx/command_line/pdb.insert_scale_records.py usr/lib/python3.13/dist-packages/iotbx/command_line/pdb.join_fragment_files.py usr/lib/python3.13/dist-packages/iotbx/command_line/pdb.link_as_geometry_restraints_edits.py usr/lib/python3.13/dist-packages/iotbx/command_line/pdb.print_sequence.py usr/lib/python3.13/dist-packages/iotbx/command_line/pdb.superpose_atoms_by_name.py usr/lib/python3.13/dist-packages/iotbx/command_line/pdb.superpose_centers_of_mass.py usr/lib/python3.13/dist-packages/iotbx/command_line/pdb_add_conformations.py usr/lib/python3.13/dist-packages/iotbx/command_line/pdb_as_cif.py usr/lib/python3.13/dist-packages/iotbx/command_line/pdb_as_fasta.py usr/lib/python3.13/dist-packages/iotbx/command_line/pdb_cif_conversion.py usr/lib/python3.13/dist-packages/iotbx/command_line/pdb_get_citation.py usr/lib/python3.13/dist-packages/iotbx/command_line/pdb_labels_comparison.py usr/lib/python3.13/dist-packages/iotbx/command_line/pdb_labels_diff.py usr/lib/python3.13/dist-packages/iotbx/command_line/pdb_remediator.py usr/lib/python3.13/dist-packages/iotbx/command_line/pdb_show_connectivity.py usr/lib/python3.13/dist-packages/iotbx/command_line/pdb_split_models.py usr/lib/python3.13/dist-packages/iotbx/command_line/phil.py usr/lib/python3.13/dist-packages/iotbx/command_line/poscar_as_xray_structure.py usr/lib/python3.13/dist-packages/iotbx/command_line/r_free_flags_accumulation.py usr/lib/python3.13/dist-packages/iotbx/command_line/r_free_flags_as_cns.py usr/lib/python3.13/dist-packages/iotbx/command_line/r_free_flags_completion_simple.py usr/lib/python3.13/dist-packages/iotbx/command_line/reflection_file_converter.py usr/lib/python3.13/dist-packages/iotbx/command_line/reflection_file_editor.py usr/lib/python3.13/dist-packages/iotbx/command_line/reflection_file_reader.py usr/lib/python3.13/dist-packages/iotbx/command_line/reflection_statistics.py usr/lib/python3.13/dist-packages/iotbx/command_line/reindex.py usr/lib/python3.13/dist-packages/iotbx/command_line/shelx.as_cif.py usr/lib/python3.13/dist-packages/iotbx/command_line/shelx.as_xray_structure.py usr/lib/python3.13/dist-packages/iotbx/command_line/shelx.dump_as_python.py usr/lib/python3.13/dist-packages/iotbx/command_line/show_distances.py usr/lib/python3.13/dist-packages/iotbx/command_line/show_systematic_absences.py usr/lib/python3.13/dist-packages/iotbx/command_line/simple_map_coefficients.py usr/lib/python3.13/dist-packages/iotbx/command_line/sort_atoms.py usr/lib/python3.13/dist-packages/iotbx/command_line/split_data_cif.py usr/lib/python3.13/dist-packages/iotbx/command_line/symmetry_search.py usr/lib/python3.13/dist-packages/iotbx/command_line/unique_with_biomt.py usr/lib/python3.13/dist-packages/iotbx/command_line/xplor.map.show_summary.py usr/lib/python3.13/dist-packages/iotbx/data_manager/ usr/lib/python3.13/dist-packages/iotbx/data_manager/__init__.py usr/lib/python3.13/dist-packages/iotbx/data_manager/common.py usr/lib/python3.13/dist-packages/iotbx/data_manager/map_coefficients.py usr/lib/python3.13/dist-packages/iotbx/data_manager/miller_array.py usr/lib/python3.13/dist-packages/iotbx/data_manager/model.py usr/lib/python3.13/dist-packages/iotbx/data_manager/ncs_spec.py usr/lib/python3.13/dist-packages/iotbx/data_manager/phil.py usr/lib/python3.13/dist-packages/iotbx/data_manager/real_map.py usr/lib/python3.13/dist-packages/iotbx/data_manager/restraint.py usr/lib/python3.13/dist-packages/iotbx/data_manager/sequence.py usr/lib/python3.13/dist-packages/iotbx/detectors/ usr/lib/python3.13/dist-packages/iotbx/detectors/__init__.py usr/lib/python3.13/dist-packages/iotbx/detectors/active_area_filter.py usr/lib/python3.13/dist-packages/iotbx/detectors/adsc.py usr/lib/python3.13/dist-packages/iotbx/detectors/adsc_minicbf.py usr/lib/python3.13/dist-packages/iotbx/detectors/adsc_module.py usr/lib/python3.13/dist-packages/iotbx/detectors/beam_center_convention.py usr/lib/python3.13/dist-packages/iotbx/detectors/bruker.py usr/lib/python3.13/dist-packages/iotbx/detectors/cbf.py usr/lib/python3.13/dist-packages/iotbx/detectors/cspad_detector_formats.py usr/lib/python3.13/dist-packages/iotbx/detectors/detectorbase.py usr/lib/python3.13/dist-packages/iotbx/detectors/dtrek.py usr/lib/python3.13/dist-packages/iotbx/detectors/edf.py usr/lib/python3.13/dist-packages/iotbx/detectors/eiger.py usr/lib/python3.13/dist-packages/iotbx/detectors/eiger_minicbf.py usr/lib/python3.13/dist-packages/iotbx/detectors/generic_detector.py usr/lib/python3.13/dist-packages/iotbx/detectors/hamamatsu.py usr/lib/python3.13/dist-packages/iotbx/detectors/image_from_http_request.py usr/lib/python3.13/dist-packages/iotbx/detectors/macscience.py usr/lib/python3.13/dist-packages/iotbx/detectors/mar.py usr/lib/python3.13/dist-packages/iotbx/detectors/marIP.py usr/lib/python3.13/dist-packages/iotbx/detectors/noir.py usr/lib/python3.13/dist-packages/iotbx/detectors/npy.py usr/lib/python3.13/dist-packages/iotbx/detectors/pilatus_minicbf.py usr/lib/python3.13/dist-packages/iotbx/detectors/pilatus_slice.py usr/lib/python3.13/dist-packages/iotbx/detectors/raxis.py usr/lib/python3.13/dist-packages/iotbx/detectors/raxis_nonsquare.py usr/lib/python3.13/dist-packages/iotbx/detectors/raxisbase.py usr/lib/python3.13/dist-packages/iotbx/detectors/saturn.py usr/lib/python3.13/dist-packages/iotbx/detectors/test_mar.py usr/lib/python3.13/dist-packages/iotbx/detectors/test_raxis2.py usr/lib/python3.13/dist-packages/iotbx/detectors/tst_adsc.py usr/lib/python3.13/dist-packages/iotbx/detectors/tst_cbf_comp_read_meth.py usr/lib/python3.13/dist-packages/iotbx/detectors/tst_debug_write.py usr/lib/python3.13/dist-packages/iotbx/detectors/tst_detectors.py usr/lib/python3.13/dist-packages/iotbx/detectors/tst_py_cbf.py usr/lib/python3.13/dist-packages/iotbx/detectors/url_support.py usr/lib/python3.13/dist-packages/iotbx/detectors/context/ usr/lib/python3.13/dist-packages/iotbx/detectors/context/__init__.py usr/lib/python3.13/dist-packages/iotbx/detectors/context/camera_convention.py usr/lib/python3.13/dist-packages/iotbx/detectors/context/config_detector.py usr/lib/python3.13/dist-packages/iotbx/detectors/context/endstation.py usr/lib/python3.13/dist-packages/iotbx/detectors/context/endstation_max_iv_trial.py usr/lib/python3.13/dist-packages/iotbx/detectors/context/spot_xy_convention.py usr/lib/python3.13/dist-packages/iotbx/detectors/util/ usr/lib/python3.13/dist-packages/iotbx/detectors/util/__init__.py usr/lib/python3.13/dist-packages/iotbx/detectors/util/filters.py usr/lib/python3.13/dist-packages/iotbx/dsn6/ usr/lib/python3.13/dist-packages/iotbx/dsn6/__init__.py usr/lib/python3.13/dist-packages/iotbx/dsn6/tst.py usr/lib/python3.13/dist-packages/iotbx/dtrek/ usr/lib/python3.13/dist-packages/iotbx/dtrek/__init__.py usr/lib/python3.13/dist-packages/iotbx/dtrek/crystal_symmetry_from_ref.py usr/lib/python3.13/dist-packages/iotbx/dtrek/dtrek_symmetry_dict.py usr/lib/python3.13/dist-packages/iotbx/dtrek/reflnlist_reader.py usr/lib/python3.13/dist-packages/iotbx/examples/ usr/lib/python3.13/dist-packages/iotbx/examples/__init__.py usr/lib/python3.13/dist-packages/iotbx/examples/direct_methods_light.py usr/lib/python3.13/dist-packages/iotbx/examples/libtbx_phil_examples.py usr/lib/python3.13/dist-packages/iotbx/examples/mtz_convert_free_to_work.py usr/lib/python3.13/dist-packages/iotbx/examples/mtz_free_flipper.py usr/lib/python3.13/dist-packages/iotbx/examples/pdb_hierarchy.py usr/lib/python3.13/dist-packages/iotbx/examples/pdb_shake.py usr/lib/python3.13/dist-packages/iotbx/examples/pdb_split_chains.py usr/lib/python3.13/dist-packages/iotbx/examples/pdb_symmetry_copies.py usr/lib/python3.13/dist-packages/iotbx/examples/pdb_tardy_conf_sampling_simple.py usr/lib/python3.13/dist-packages/iotbx/examples/pdb_to_map_simple.py usr/lib/python3.13/dist-packages/iotbx/examples/pdbx_mmcif_tutorial.py usr/lib/python3.13/dist-packages/iotbx/examples/prepare_model_for_rsr.py usr/lib/python3.13/dist-packages/iotbx/examples/recalculate_phenix_refine_r_factors.py usr/lib/python3.13/dist-packages/iotbx/examples/shelx_latt_sym_to_space_group_symbol.py usr/lib/python3.13/dist-packages/iotbx/examples/tst_mtz_free_flipper.py usr/lib/python3.13/dist-packages/iotbx/examples/pdb_truncate_to_ala/ usr/lib/python3.13/dist-packages/iotbx/examples/pdb_truncate_to_ala/__init__.py usr/lib/python3.13/dist-packages/iotbx/examples/pdb_truncate_to_ala/tst.py usr/lib/python3.13/dist-packages/iotbx/examples/pdb_truncate_to_ala/v0_getting_started.py usr/lib/python3.13/dist-packages/iotbx/examples/pdb_truncate_to_ala/v1_loop_over_atoms.py usr/lib/python3.13/dist-packages/iotbx/examples/pdb_truncate_to_ala/v2_simple.py usr/lib/python3.13/dist-packages/iotbx/examples/pdb_truncate_to_ala/v3_better.py usr/lib/python3.13/dist-packages/iotbx/examples/pdb_truncate_to_ala/v4_with_bells_and_whistles.py usr/lib/python3.13/dist-packages/iotbx/fullprof/ usr/lib/python3.13/dist-packages/iotbx/fullprof/__init__.py usr/lib/python3.13/dist-packages/iotbx/fullprof/read_pcr.py usr/lib/python3.13/dist-packages/iotbx/fullprof/write_pcr.py usr/lib/python3.13/dist-packages/iotbx/gui_tools/ usr/lib/python3.13/dist-packages/iotbx/gui_tools/__init__.py usr/lib/python3.13/dist-packages/iotbx/gui_tools/cif_conversions.py usr/lib/python3.13/dist-packages/iotbx/gui_tools/import_data_and_flags.py usr/lib/python3.13/dist-packages/iotbx/gui_tools/models.py usr/lib/python3.13/dist-packages/iotbx/gui_tools/reflections.py usr/lib/python3.13/dist-packages/iotbx/gui_tools/tst.py usr/lib/python3.13/dist-packages/iotbx/kriber/ usr/lib/python3.13/dist-packages/iotbx/kriber/__init__.py usr/lib/python3.13/dist-packages/iotbx/kriber/strudat.py usr/lib/python3.13/dist-packages/iotbx/kriber/tst_strudat.py usr/lib/python3.13/dist-packages/iotbx/mrcfile/ usr/lib/python3.13/dist-packages/iotbx/mrcfile/__init__.py usr/lib/python3.13/dist-packages/iotbx/mrcfile/crystal_symmetry_from_ccp4_map.py usr/lib/python3.13/dist-packages/iotbx/mtz/ usr/lib/python3.13/dist-packages/iotbx/mtz/__init__.py usr/lib/python3.13/dist-packages/iotbx/mtz/crystal_symmetry_from_mtz.py usr/lib/python3.13/dist-packages/iotbx/mtz/extract_from_symmetry_lib.py usr/lib/python3.13/dist-packages/iotbx/mtz/tst.py usr/lib/python3.13/dist-packages/iotbx/mtz/tst_dano.py usr/lib/python3.13/dist-packages/iotbx/mtz/tst_ext.py usr/lib/python3.13/dist-packages/iotbx/mtz/tst_extract_from_symmetry_lib.py usr/lib/python3.13/dist-packages/iotbx/mtz/tst_miller_dict.py usr/lib/python3.13/dist-packages/iotbx/mtz/tst_unmerged.py usr/lib/python3.13/dist-packages/iotbx/ncs/ usr/lib/python3.13/dist-packages/iotbx/ncs/__init__.py usr/lib/python3.13/dist-packages/iotbx/pdb/ usr/lib/python3.13/dist-packages/iotbx/pdb/__init__.py usr/lib/python3.13/dist-packages/iotbx/pdb/aa_utils.py usr/lib/python3.13/dist-packages/iotbx/pdb/amino_acid_codes.py usr/lib/python3.13/dist-packages/iotbx/pdb/atom_name_interpretation.py usr/lib/python3.13/dist-packages/iotbx/pdb/atom_selection.py usr/lib/python3.13/dist-packages/iotbx/pdb/cryst1_interpretation.py usr/lib/python3.13/dist-packages/iotbx/pdb/crystal_symmetry_from_pdb.py usr/lib/python3.13/dist-packages/iotbx/pdb/download.py usr/lib/python3.13/dist-packages/iotbx/pdb/experiment_type.py usr/lib/python3.13/dist-packages/iotbx/pdb/extract_rfactors_resolutions_sigma.py usr/lib/python3.13/dist-packages/iotbx/pdb/fetch.py usr/lib/python3.13/dist-packages/iotbx/pdb/forward_compatible_pdb_cif_conversion.py usr/lib/python3.13/dist-packages/iotbx/pdb/hierarchy.py usr/lib/python3.13/dist-packages/iotbx/pdb/hybrid_36.py usr/lib/python3.13/dist-packages/iotbx/pdb/misc_records_output.py usr/lib/python3.13/dist-packages/iotbx/pdb/mmcif.py usr/lib/python3.13/dist-packages/iotbx/pdb/modified_aa_names.py usr/lib/python3.13/dist-packages/iotbx/pdb/modified_rna_dna_names.py usr/lib/python3.13/dist-packages/iotbx/pdb/nucleic_acid_codes.py usr/lib/python3.13/dist-packages/iotbx/pdb/pdb_v3_cif_conversion.py usr/lib/python3.13/dist-packages/iotbx/pdb/pdbe.py usr/lib/python3.13/dist-packages/iotbx/pdb/rcsb.py usr/lib/python3.13/dist-packages/iotbx/pdb/records.py usr/lib/python3.13/dist-packages/iotbx/pdb/remark_290_interpretation.py usr/lib/python3.13/dist-packages/iotbx/pdb/remark_2_interpretation.py usr/lib/python3.13/dist-packages/iotbx/pdb/remark_3_interpretation.py usr/lib/python3.13/dist-packages/iotbx/pdb/rna_dna_detection.py usr/lib/python3.13/dist-packages/iotbx/pdb/secondary_structure.py usr/lib/python3.13/dist-packages/iotbx/pdb/tst_atom_name_interpretation.py usr/lib/python3.13/dist-packages/iotbx/pdb/tst_atom_selection.py usr/lib/python3.13/dist-packages/iotbx/pdb/tst_atom_selection_string.py usr/lib/python3.13/dist-packages/iotbx/pdb/tst_ext.py usr/lib/python3.13/dist-packages/iotbx/pdb/tst_extract_rfactors_resolutions_sigma.py usr/lib/python3.13/dist-packages/iotbx/pdb/tst_hierarchy.py usr/lib/python3.13/dist-packages/iotbx/pdb/tst_hierarchy_atom_sort.py usr/lib/python3.13/dist-packages/iotbx/pdb/tst_hierarchy_flip_symmetric.py usr/lib/python3.13/dist-packages/iotbx/pdb/tst_hierarchy_flip_symmetric_2.py usr/lib/python3.13/dist-packages/iotbx/pdb/tst_mmcif.py usr/lib/python3.13/dist-packages/iotbx/pdb/tst_mmcif_hierarchy.py usr/lib/python3.13/dist-packages/iotbx/pdb/tst_mmcif_hierarchy_2.py usr/lib/python3.13/dist-packages/iotbx/pdb/tst_pdb.py usr/lib/python3.13/dist-packages/iotbx/pdb/tst_read_mtrix_records_from_cif.py usr/lib/python3.13/dist-packages/iotbx/pdb/tst_rna_dna_atom_names.py usr/lib/python3.13/dist-packages/iotbx/pdb/tst_secondary_structure.py usr/lib/python3.13/dist-packages/iotbx/pdb/tst_secondary_structure_2.py usr/lib/python3.13/dist-packages/iotbx/pdb/tst_tls.py usr/lib/python3.13/dist-packages/iotbx/pdb/tst_utils.py usr/lib/python3.13/dist-packages/iotbx/pdb/utils.py usr/lib/python3.13/dist-packages/iotbx/pdb/web_service_api.py usr/lib/python3.13/dist-packages/iotbx/pdb/xray_structure.py usr/lib/python3.13/dist-packages/iotbx/pdb/remediation/ usr/lib/python3.13/dist-packages/iotbx/pdb/remediation/__init__.py usr/lib/python3.13/dist-packages/iotbx/pdb/remediation/remediator.py usr/lib/python3.13/dist-packages/iotbx/pdb/remediation/tst_remediator.py usr/lib/python3.13/dist-packages/iotbx/programs/ usr/lib/python3.13/dist-packages/iotbx/programs/__init__.py usr/lib/python3.13/dist-packages/iotbx/programs/box_around_molecule.py usr/lib/python3.13/dist-packages/iotbx/programs/split_data_cif.py usr/lib/python3.13/dist-packages/iotbx/programs/unique_with_biomt.py usr/lib/python3.13/dist-packages/iotbx/regression/ usr/lib/python3.13/dist-packages/iotbx/regression/__init__.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_add_conformations.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_all_chain_ids.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_atom_selections_10k.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_bioinformatics.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_box_around_molecule.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_cif_1.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_cif_as_pdb_1atom.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_cli_parser.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_crystal_symmetry_from_any.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_csv_utils.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_data_manager.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_data_plots.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_examples.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_export_scalepack_unmerged.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_extract_xtal_data.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_fetch.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_file_reader.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_generate_n_char_string.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_group_rounding.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_hierarchy_altlocs.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_hierarchy_copy_select.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_hierarchy_forward_compatible_pdb.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_hierarchy_id_str.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_hierarchy_long_chain_ids_1.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_hierarchy_long_resname_1.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_hierarchy_long_resname_2.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_hierarchy_long_resname_3.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_hierarchy_long_resname_4.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_hierarchy_merge_atoms_at_end_to_residues.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_hierarchy_occupancies_rounding.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_hierarchy_pdb_v3.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_lattice_symmetry.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_map_manager.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_map_manager_2.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_map_manager_wrapping.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_map_model_manager.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_map_model_manager_2.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_map_model_manager_3.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_map_model_manager_4.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_map_model_manager_9_remove_origin_shift_and_unit_cell_crystal_symmetry.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_map_model_manager_9_remove_origin_shift_and_unit_cell_crystal_symmetry_cif.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_map_model_manager_call_consistency.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_map_model_manager_cif.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_map_model_manager_external_sharpening_7.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_map_model_manager_half_map_sharpening_6.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_map_model_manager_local_resolution_10.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_map_model_manager_model_sharpening_5.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_map_model_manager_model_sharpening_5_cif.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_map_model_manager_tls_from_map_8.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_map_tools.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_merging_statistics.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_miller_sort_asu.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_mmcif_input.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_mmcif_multimodel.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_mmcif_segids.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_mmcif_to_from_hierarchy.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_mrc_io.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_mtz_as_cif.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_patterson.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_pdb_as_cif.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_pdb_as_fasta.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_pdb_cif_cells.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_pdb_cif_inputs.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_pdb_link_records.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_pdbx_mmcif_tutorial.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_phases.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_phil.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_poscar.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_reflection_file_editor.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_reflection_file_reader.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_reflection_file_utils.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_reflection_statistics.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_reindex.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_restraints_merge.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_selected_hierarchy_flip.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_show_systematic_absences.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_simple_map_coefficients.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_simple_parser.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_sort_atoms.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_split_data_cif.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_split_models.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_symmetry.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_wildcard.py usr/lib/python3.13/dist-packages/iotbx/regression/tst_xray_scale.py usr/lib/python3.13/dist-packages/iotbx/regression/utils.py usr/lib/python3.13/dist-packages/iotbx/regression/ncs/ usr/lib/python3.13/dist-packages/iotbx/regression/ncs/__init__.py usr/lib/python3.13/dist-packages/iotbx/regression/ncs/tst_mmcif_biomt_reduction_output.py usr/lib/python3.13/dist-packages/iotbx/regression/ncs/tst_mtrix_biomt_cmdl.py usr/lib/python3.13/dist-packages/iotbx/regression/ncs/tst_ncs.py usr/lib/python3.13/dist-packages/iotbx/regression/ncs/tst_ncs_groups_preprocessing.py usr/lib/python3.13/dist-packages/iotbx/regression/ncs/tst_ncs_input.py usr/lib/python3.13/dist-packages/iotbx/regression/ncs/tst_ncs_reordered_chains.py usr/lib/python3.13/dist-packages/iotbx/regression/ncs/tst_ncs_search_broken_chain.py usr/lib/python3.13/dist-packages/iotbx/regression/ncs/tst_ncs_search_ligs.py usr/lib/python3.13/dist-packages/iotbx/regression/ncs/tst_ncs_search_shortcut_1.py usr/lib/python3.13/dist-packages/iotbx/regression/ncs/tst_ncs_user_selections.py usr/lib/python3.13/dist-packages/iotbx/regression/ncs/tst_ncs_without_validation.py usr/lib/python3.13/dist-packages/iotbx/scalepack/ usr/lib/python3.13/dist-packages/iotbx/scalepack/__init__.py usr/lib/python3.13/dist-packages/iotbx/scalepack/crystal_symmetry_from_hkl.py usr/lib/python3.13/dist-packages/iotbx/scalepack/merge.py usr/lib/python3.13/dist-packages/iotbx/scalepack/no_merge_original_index.py usr/lib/python3.13/dist-packages/iotbx/scalepack/space_group_dictionary.py usr/lib/python3.13/dist-packages/iotbx/scalepack/tst_merge.py usr/lib/python3.13/dist-packages/iotbx/scalepack/tst_no_merge_original_index.py usr/lib/python3.13/dist-packages/iotbx/shelx/ usr/lib/python3.13/dist-packages/iotbx/shelx/__init__.py usr/lib/python3.13/dist-packages/iotbx/shelx/crystal_symmetry_from_ins.py usr/lib/python3.13/dist-packages/iotbx/shelx/errors.py usr/lib/python3.13/dist-packages/iotbx/shelx/fcf.py usr/lib/python3.13/dist-packages/iotbx/shelx/fvar_encoding.py usr/lib/python3.13/dist-packages/iotbx/shelx/hklf.py usr/lib/python3.13/dist-packages/iotbx/shelx/lexer.py usr/lib/python3.13/dist-packages/iotbx/shelx/parsers.py usr/lib/python3.13/dist-packages/iotbx/shelx/tokens.py usr/lib/python3.13/dist-packages/iotbx/shelx/tst_fvar_encoding.py usr/lib/python3.13/dist-packages/iotbx/shelx/tst_hklf.py usr/lib/python3.13/dist-packages/iotbx/shelx/tst_lex_parse_build.py usr/lib/python3.13/dist-packages/iotbx/shelx/tst_writer.py usr/lib/python3.13/dist-packages/iotbx/shelx/write_ins.py usr/lib/python3.13/dist-packages/iotbx/shelx/writer.py usr/lib/python3.13/dist-packages/iotbx/solve/ usr/lib/python3.13/dist-packages/iotbx/solve/__init__.py usr/lib/python3.13/dist-packages/iotbx/solve/crystal_symmetry_from_inp.py usr/lib/python3.13/dist-packages/iotbx/solve/fpfm_reader.py usr/lib/python3.13/dist-packages/iotbx/xds/ usr/lib/python3.13/dist-packages/iotbx/xds/__init__.py usr/lib/python3.13/dist-packages/iotbx/xds/blank_cbf.py usr/lib/python3.13/dist-packages/iotbx/xds/correction.py usr/lib/python3.13/dist-packages/iotbx/xds/crystal_symmetry_from_hkl.py usr/lib/python3.13/dist-packages/iotbx/xds/gain_cbf.py usr/lib/python3.13/dist-packages/iotbx/xds/geometry.py usr/lib/python3.13/dist-packages/iotbx/xds/integrate_hkl.py usr/lib/python3.13/dist-packages/iotbx/xds/read_ascii.py usr/lib/python3.13/dist-packages/iotbx/xds/spot_xds.py usr/lib/python3.13/dist-packages/iotbx/xds/xds_cbf.py usr/lib/python3.13/dist-packages/iotbx/xds/xds_inp.py usr/lib/python3.13/dist-packages/iotbx/xds/xparm.py usr/lib/python3.13/dist-packages/iotbx/xplor/ usr/lib/python3.13/dist-packages/iotbx/xplor/__init__.py usr/lib/python3.13/dist-packages/iotbx/xplor/crystal_symmetry_from_map.py usr/lib/python3.13/dist-packages/iotbx/xplor/ext.py usr/lib/python3.13/dist-packages/iotbx/xplor/map.py usr/lib/python3.13/dist-packages/iotbx/xplor/tst_xplormap.py usr/lib/python3.13/dist-packages/libtbx/ usr/lib/python3.13/dist-packages/libtbx/__init__.py usr/lib/python3.13/dist-packages/libtbx/assert_utils.py usr/lib/python3.13/dist-packages/libtbx/binary_search.py usr/lib/python3.13/dist-packages/libtbx/callbacks.py usr/lib/python3.13/dist-packages/libtbx/citations.py usr/lib/python3.13/dist-packages/libtbx/clear_paths.py usr/lib/python3.13/dist-packages/libtbx/cli.py usr/lib/python3.13/dist-packages/libtbx/cluster.py usr/lib/python3.13/dist-packages/libtbx/clusterTests.py usr/lib/python3.13/dist-packages/libtbx/code_analysis.py usr/lib/python3.13/dist-packages/libtbx/complex_math.py usr/lib/python3.13/dist-packages/libtbx/configure.py usr/lib/python3.13/dist-packages/libtbx/console_utils.py usr/lib/python3.13/dist-packages/libtbx/containers.py usr/lib/python3.13/dist-packages/libtbx/cpp_function_name.py usr/lib/python3.13/dist-packages/libtbx/crossmingw.py usr/lib/python3.13/dist-packages/libtbx/dlite.py usr/lib/python3.13/dist-packages/libtbx/easy_mp.py usr/lib/python3.13/dist-packages/libtbx/easy_pickle.py usr/lib/python3.13/dist-packages/libtbx/easy_profile.py usr/lib/python3.13/dist-packages/libtbx/easy_run.py usr/lib/python3.13/dist-packages/libtbx/env_config.py usr/lib/python3.13/dist-packages/libtbx/file_clutter.py usr/lib/python3.13/dist-packages/libtbx/find_reference_cycles.py usr/lib/python3.13/dist-packages/libtbx/forward_compatibility.py usr/lib/python3.13/dist-packages/libtbx/introspection.py usr/lib/python3.13/dist-packages/libtbx/libtbx_refresh.py usr/lib/python3.13/dist-packages/libtbx/load_env.py usr/lib/python3.13/dist-packages/libtbx/log.py usr/lib/python3.13/dist-packages/libtbx/math_utils.py usr/lib/python3.13/dist-packages/libtbx/metric_prefixes.py usr/lib/python3.13/dist-packages/libtbx/mpi4py.py usr/lib/python3.13/dist-packages/libtbx/object_oriented_patterns.py usr/lib/python3.13/dist-packages/libtbx/objgraph.py usr/lib/python3.13/dist-packages/libtbx/option_parser.py usr/lib/python3.13/dist-packages/libtbx/path.py usr/lib/python3.13/dist-packages/libtbx/pkg_utils.py usr/lib/python3.13/dist-packages/libtbx/program_template.py usr/lib/python3.13/dist-packages/libtbx/progress.py usr/lib/python3.13/dist-packages/libtbx/pyframe.py usr/lib/python3.13/dist-packages/libtbx/pyplot.py usr/lib/python3.13/dist-packages/libtbx/python_code_parsing.py usr/lib/python3.13/dist-packages/libtbx/resource_monitor.py usr/lib/python3.13/dist-packages/libtbx/run_tests.py usr/lib/python3.13/dist-packages/libtbx/runtime_utils.py usr/lib/python3.13/dist-packages/libtbx/simplexml.py usr/lib/python3.13/dist-packages/libtbx/smart_open.py usr/lib/python3.13/dist-packages/libtbx/start_print_trace.py usr/lib/python3.13/dist-packages/libtbx/str_utils.py usr/lib/python3.13/dist-packages/libtbx/subprocess_with_fixes.py usr/lib/python3.13/dist-packages/libtbx/table_utils.py usr/lib/python3.13/dist-packages/libtbx/thread_utils.py usr/lib/python3.13/dist-packages/libtbx/topological_sort.py usr/lib/python3.13/dist-packages/libtbx/try_hello_world_c.py usr/lib/python3.13/dist-packages/libtbx/tst_add_docstrings_with_ai.py usr/lib/python3.13/dist-packages/libtbx/tst_binary_search.py usr/lib/python3.13/dist-packages/libtbx/tst_citations.py usr/lib/python3.13/dist-packages/libtbx/tst_containers.py usr/lib/python3.13/dist-packages/libtbx/tst_dlite.py usr/lib/python3.13/dist-packages/libtbx/tst_easy_mp.py usr/lib/python3.13/dist-packages/libtbx/tst_easy_mp_multicore.py usr/lib/python3.13/dist-packages/libtbx/tst_easy_mp_state.py usr/lib/python3.13/dist-packages/libtbx/tst_easy_pickle.py usr/lib/python3.13/dist-packages/libtbx/tst_find_unused_imports.py usr/lib/python3.13/dist-packages/libtbx/tst_fully_buffered_timeout.py usr/lib/python3.13/dist-packages/libtbx/tst_mahalanobis.py usr/lib/python3.13/dist-packages/libtbx/tst_math_utils.py usr/lib/python3.13/dist-packages/libtbx/tst_object_oriented_patterns.py usr/lib/python3.13/dist-packages/libtbx/tst_path.py usr/lib/python3.13/dist-packages/libtbx/tst_program_template.py usr/lib/python3.13/dist-packages/libtbx/tst_python_code_parsing.py usr/lib/python3.13/dist-packages/libtbx/tst_representation.py usr/lib/python3.13/dist-packages/libtbx/tst_run_tests_parallel_retry.py usr/lib/python3.13/dist-packages/libtbx/tst_run_tests_parallel_unique_dirs.py usr/lib/python3.13/dist-packages/libtbx/tst_runtime_utils.py usr/lib/python3.13/dist-packages/libtbx/tst_scheduling.py usr/lib/python3.13/dist-packages/libtbx/tst_str_utils.py usr/lib/python3.13/dist-packages/libtbx/tst_thread_utils.py usr/lib/python3.13/dist-packages/libtbx/tst_topological_sort.py usr/lib/python3.13/dist-packages/libtbx/tst_utils.py usr/lib/python3.13/dist-packages/libtbx/tst_version.py usr/lib/python3.13/dist-packages/libtbx/tst_word_index_generator.py usr/lib/python3.13/dist-packages/libtbx/tst_xmlrpc_utils.py usr/lib/python3.13/dist-packages/libtbx/utils.py usr/lib/python3.13/dist-packages/libtbx/version.py usr/lib/python3.13/dist-packages/libtbx/wingide.py usr/lib/python3.13/dist-packages/libtbx/word_index_generator.py usr/lib/python3.13/dist-packages/libtbx/xmlrpc_server_example.py usr/lib/python3.13/dist-packages/libtbx/xmlrpc_utils.py usr/lib/python3.13/dist-packages/libtbx/auto_build/ usr/lib/python3.13/dist-packages/libtbx/auto_build/__init__.py usr/lib/python3.13/dist-packages/libtbx/auto_build/bootstrap.py usr/lib/python3.13/dist-packages/libtbx/auto_build/create_cctbx_bundle_for_installer.py usr/lib/python3.13/dist-packages/libtbx/auto_build/create_installer.py usr/lib/python3.13/dist-packages/libtbx/auto_build/create_mac_app.py usr/lib/python3.13/dist-packages/libtbx/auto_build/create_mac_pkg.py usr/lib/python3.13/dist-packages/libtbx/auto_build/create_windows_exe.py usr/lib/python3.13/dist-packages/libtbx/auto_build/create_windows_installer.py usr/lib/python3.13/dist-packages/libtbx/auto_build/install_base_packages.py usr/lib/python3.13/dist-packages/libtbx/auto_build/install_conda.py usr/lib/python3.13/dist-packages/libtbx/auto_build/install_distribution.py usr/lib/python3.13/dist-packages/libtbx/auto_build/installer_utils.py usr/lib/python3.13/dist-packages/libtbx/auto_build/make_bundle.py usr/lib/python3.13/dist-packages/libtbx/auto_build/package_defs.py usr/lib/python3.13/dist-packages/libtbx/auto_build/plus_installer.py usr/lib/python3.13/dist-packages/libtbx/auto_build/regenerate_module_files.py usr/lib/python3.13/dist-packages/libtbx/auto_build/rpath.py usr/lib/python3.13/dist-packages/libtbx/auto_build/setup_installer.py usr/lib/python3.13/dist-packages/libtbx/auto_build/write_gui_dispatcher_include.py usr/lib/python3.13/dist-packages/libtbx/bundle/ usr/lib/python3.13/dist-packages/libtbx/bundle/__init__.py usr/lib/python3.13/dist-packages/libtbx/bundle/copy_all.py usr/lib/python3.13/dist-packages/libtbx/bundle/copy_build_libtbx.py usr/lib/python3.13/dist-packages/libtbx/bundle/copy_runtime_sources.py usr/lib/python3.13/dist-packages/libtbx/bundle/install_bat.py usr/lib/python3.13/dist-packages/libtbx/bundle/install_csh.py usr/lib/python3.13/dist-packages/libtbx/bundle/utils.py usr/lib/python3.13/dist-packages/libtbx/command_line/ usr/lib/python3.13/dist-packages/libtbx/command_line/__init__.py usr/lib/python3.13/dist-packages/libtbx/command_line/add_docstrings_with_ai.py usr/lib/python3.13/dist-packages/libtbx/command_line/analyse_code_comments.py usr/lib/python3.13/dist-packages/libtbx/command_line/any2unix.py usr/lib/python3.13/dist-packages/libtbx/command_line/assert_line_count.py usr/lib/python3.13/dist-packages/libtbx/command_line/assert_not_show_diff.py usr/lib/python3.13/dist-packages/libtbx/command_line/assert_stdin.py usr/lib/python3.13/dist-packages/libtbx/command_line/assert_stdin_contains_strings.py usr/lib/python3.13/dist-packages/libtbx/command_line/assert_stdin_ends_with.py usr/lib/python3.13/dist-packages/libtbx/command_line/bootstrap.py usr/lib/python3.13/dist-packages/libtbx/command_line/bundle_as_exe.py usr/lib/python3.13/dist-packages/libtbx/command_line/cctbx_chunk.py usr/lib/python3.13/dist-packages/libtbx/command_line/check_libcpp.py usr/lib/python3.13/dist-packages/libtbx/command_line/clean_clutter.py usr/lib/python3.13/dist-packages/libtbx/command_line/clear_paths.py usr/lib/python3.13/dist-packages/libtbx/command_line/create_cctbx_bundle_for_installer.py usr/lib/python3.13/dist-packages/libtbx/command_line/create_install_script_bat.py usr/lib/python3.13/dist-packages/libtbx/command_line/create_installer.py usr/lib/python3.13/dist-packages/libtbx/command_line/create_mac_app.py usr/lib/python3.13/dist-packages/libtbx/command_line/create_selfx.py usr/lib/python3.13/dist-packages/libtbx/command_line/create_unzipsfx.py usr/lib/python3.13/dist-packages/libtbx/command_line/create_windows_exe.py usr/lib/python3.13/dist-packages/libtbx/command_line/dtrace.py usr/lib/python3.13/dist-packages/libtbx/command_line/easy_qsub.py usr/lib/python3.13/dist-packages/libtbx/command_line/env_run.py usr/lib/python3.13/dist-packages/libtbx/command_line/epydoc_run.py usr/lib/python3.13/dist-packages/libtbx/command_line/extract_code_from_txt.py usr/lib/python3.13/dist-packages/libtbx/command_line/find_clutter.py usr/lib/python3.13/dist-packages/libtbx/command_line/find_files.py usr/lib/python3.13/dist-packages/libtbx/command_line/find_in_repositories.py usr/lib/python3.13/dist-packages/libtbx/command_line/find_old_style_classes.py usr/lib/python3.13/dist-packages/libtbx/command_line/find_pdb_mmcif_problems.py usr/lib/python3.13/dist-packages/libtbx/command_line/find_reserved_names.py usr/lib/python3.13/dist-packages/libtbx/command_line/find_under_build.py usr/lib/python3.13/dist-packages/libtbx/command_line/find_untested.py usr/lib/python3.13/dist-packages/libtbx/command_line/find_unused_imports.py usr/lib/python3.13/dist-packages/libtbx/command_line/find_unused_imports_crude.py usr/lib/python3.13/dist-packages/libtbx/command_line/git_avoid_merges.py usr/lib/python3.13/dist-packages/libtbx/command_line/help.py usr/lib/python3.13/dist-packages/libtbx/command_line/import_all_ext.py usr/lib/python3.13/dist-packages/libtbx/command_line/import_all_python.py usr/lib/python3.13/dist-packages/libtbx/command_line/install.py usr/lib/python3.13/dist-packages/libtbx/command_line/install_conda.py usr/lib/python3.13/dist-packages/libtbx/command_line/ipython_shell_start.py usr/lib/python3.13/dist-packages/libtbx/command_line/line_count.py usr/lib/python3.13/dist-packages/libtbx/command_line/list_files.py usr/lib/python3.13/dist-packages/libtbx/command_line/list_modules.py usr/lib/python3.13/dist-packages/libtbx/command_line/list_source_files_sorted_by_size.py usr/lib/python3.13/dist-packages/libtbx/command_line/make_dist.py usr/lib/python3.13/dist-packages/libtbx/command_line/make_sphinx_html.py usr/lib/python3.13/dist-packages/libtbx/command_line/nequal.py usr/lib/python3.13/dist-packages/libtbx/command_line/parallel_simple.py usr/lib/python3.13/dist-packages/libtbx/command_line/path_utility.py usr/lib/python3.13/dist-packages/libtbx/command_line/phil.py usr/lib/python3.13/dist-packages/libtbx/command_line/prime_factors_of.py usr/lib/python3.13/dist-packages/libtbx/command_line/printenv.py usr/lib/python3.13/dist-packages/libtbx/command_line/py_compile_all.py usr/lib/python3.13/dist-packages/libtbx/command_line/raise_exception_for_testing.py usr/lib/python3.13/dist-packages/libtbx/command_line/reindent.py usr/lib/python3.13/dist-packages/libtbx/command_line/remote_processing.py usr/lib/python3.13/dist-packages/libtbx/command_line/remove_tree.py usr/lib/python3.13/dist-packages/libtbx/command_line/remove_unused_imports.py usr/lib/python3.13/dist-packages/libtbx/command_line/resource_monitor_plot.py usr/lib/python3.13/dist-packages/libtbx/command_line/run_pickled_function.py usr/lib/python3.13/dist-packages/libtbx/command_line/run_tests_parallel.py usr/lib/python3.13/dist-packages/libtbx/command_line/scons.py usr/lib/python3.13/dist-packages/libtbx/command_line/seconds_since_the_epoch.py usr/lib/python3.13/dist-packages/libtbx/command_line/sge_available_slots.py usr/lib/python3.13/dist-packages/libtbx/command_line/sge_qstat_counts.py usr/lib/python3.13/dist-packages/libtbx/command_line/show_all_on_path.py usr/lib/python3.13/dist-packages/libtbx/command_line/show_bin_path.py usr/lib/python3.13/dist-packages/libtbx/command_line/show_build_options.py usr/lib/python3.13/dist-packages/libtbx/command_line/show_build_path.py usr/lib/python3.13/dist-packages/libtbx/command_line/show_but_no_repr.py usr/lib/python3.13/dist-packages/libtbx/command_line/show_commands.py usr/lib/python3.13/dist-packages/libtbx/command_line/show_date_and_time.py usr/lib/python3.13/dist-packages/libtbx/command_line/show_dist_paths.py usr/lib/python3.13/dist-packages/libtbx/command_line/show_env.py usr/lib/python3.13/dist-packages/libtbx/command_line/show_environ_usage.py usr/lib/python3.13/dist-packages/libtbx/command_line/show_full_command_path.py usr/lib/python3.13/dist-packages/libtbx/command_line/show_host_and_user.py usr/lib/python3.13/dist-packages/libtbx/command_line/show_include_paths.py usr/lib/python3.13/dist-packages/libtbx/command_line/show_lib_path.py usr/lib/python3.13/dist-packages/libtbx/command_line/show_module_dependencies.py usr/lib/python3.13/dist-packages/libtbx/command_line/show_number_of_processors.py usr/lib/python3.13/dist-packages/libtbx/command_line/show_numeric_version.py usr/lib/python3.13/dist-packages/libtbx/command_line/show_numpy_version.py usr/lib/python3.13/dist-packages/libtbx/command_line/show_python_dependencies.py usr/lib/python3.13/dist-packages/libtbx/command_line/show_python_sys_executable.py usr/lib/python3.13/dist-packages/libtbx/command_line/show_pythonpath.py usr/lib/python3.13/dist-packages/libtbx/command_line/show_repository_paths.py usr/lib/python3.13/dist-packages/libtbx/command_line/show_tests.py usr/lib/python3.13/dist-packages/libtbx/command_line/show_variable_names.py usr/lib/python3.13/dist-packages/libtbx/command_line/sphinx_build.py usr/lib/python3.13/dist-packages/libtbx/command_line/start_binary_bundle.py usr/lib/python3.13/dist-packages/libtbx/command_line/start_process.py usr/lib/python3.13/dist-packages/libtbx/command_line/wait_for_file.py usr/lib/python3.13/dist-packages/libtbx/development/ usr/lib/python3.13/dist-packages/libtbx/development/__init__.py usr/lib/python3.13/dist-packages/libtbx/development/except_Exception.py usr/lib/python3.13/dist-packages/libtbx/development/timers.py usr/lib/python3.13/dist-packages/libtbx/development/xcode_build_phase.py usr/lib/python3.13/dist-packages/libtbx/langchain/ usr/lib/python3.13/dist-packages/libtbx/langchain/__init__.py usr/lib/python3.13/dist-packages/libtbx/langchain/phenix_knowledge.py usr/lib/python3.13/dist-packages/libtbx/langchain/run_build_db.py usr/lib/python3.13/dist-packages/libtbx/langchain/run_inspect_db.py usr/lib/python3.13/dist-packages/libtbx/langchain/run_query_docs.py usr/lib/python3.13/dist-packages/libtbx/langchain/agent/ usr/lib/python3.13/dist-packages/libtbx/langchain/agent/__init__.py usr/lib/python3.13/dist-packages/libtbx/langchain/agent/advice_preprocessor.py usr/lib/python3.13/dist-packages/libtbx/langchain/agent/api_client.py usr/lib/python3.13/dist-packages/libtbx/langchain/agent/best_files_tracker.py usr/lib/python3.13/dist-packages/libtbx/langchain/agent/command_builder.py usr/lib/python3.13/dist-packages/libtbx/langchain/agent/command_postprocessor.py usr/lib/python3.13/dist-packages/libtbx/langchain/agent/config_loader.py usr/lib/python3.13/dist-packages/libtbx/langchain/agent/contract.py usr/lib/python3.13/dist-packages/libtbx/langchain/agent/directive_extractor.py usr/lib/python3.13/dist-packages/libtbx/langchain/agent/directive_validator.py usr/lib/python3.13/dist-packages/libtbx/langchain/agent/display_data_model.py usr/lib/python3.13/dist-packages/libtbx/langchain/agent/docs_tools.py usr/lib/python3.13/dist-packages/libtbx/langchain/agent/dry_run_manager.py usr/lib/python3.13/dist-packages/libtbx/langchain/agent/error_analyzer.py usr/lib/python3.13/dist-packages/libtbx/langchain/agent/error_classifier.py usr/lib/python3.13/dist-packages/libtbx/langchain/agent/event_formatter.py usr/lib/python3.13/dist-packages/libtbx/langchain/agent/event_log.py usr/lib/python3.13/dist-packages/libtbx/langchain/agent/failure_diagnoser.py usr/lib/python3.13/dist-packages/libtbx/langchain/agent/file_metadata.py usr/lib/python3.13/dist-packages/libtbx/langchain/agent/file_utils.py 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usr/lib/python3.13/dist-packages/libtbx/scheduling/parallel_for.py usr/lib/python3.13/dist-packages/libtbx/scheduling/philgen.py usr/lib/python3.13/dist-packages/libtbx/scheduling/process_pool.py usr/lib/python3.13/dist-packages/libtbx/scheduling/result.py usr/lib/python3.13/dist-packages/libtbx/scheduling/shared_resource.py usr/lib/python3.13/dist-packages/libtbx/scheduling/socket_queue.py usr/lib/python3.13/dist-packages/libtbx/scheduling/stacktrace.py usr/lib/python3.13/dist-packages/libtbx/scheduling/thread_handler.py usr/lib/python3.13/dist-packages/libtbx/server/ usr/lib/python3.13/dist-packages/libtbx/server/FileClient.py usr/lib/python3.13/dist-packages/libtbx/server/FileServer.py usr/lib/python3.13/dist-packages/libtbx/server/FileSocket.py usr/lib/python3.13/dist-packages/libtbx/server/SocketServer.py usr/lib/python3.13/dist-packages/libtbx/server/StartServer.py usr/lib/python3.13/dist-packages/libtbx/server/__init__.py usr/lib/python3.13/dist-packages/libtbx/sphinx/ usr/lib/python3.13/dist-packages/libtbx/sphinx/__init__.py usr/lib/python3.13/dist-packages/libtbx/sphinx/phil.py usr/lib/python3.13/dist-packages/libtbx/sphinx/pubmed.py usr/lib/python3.13/dist-packages/libtbx/sphinx/python_string.py usr/lib/python3.13/dist-packages/libtbx/test_utils/ usr/lib/python3.13/dist-packages/libtbx/test_utils/__init__.py usr/lib/python3.13/dist-packages/libtbx/test_utils/parallel.py usr/lib/python3.13/dist-packages/mmtbx/ usr/lib/python3.13/dist-packages/mmtbx/__init__.py usr/lib/python3.13/dist-packages/mmtbx/arrays.py usr/lib/python3.13/dist-packages/mmtbx/clashes.py usr/lib/python3.13/dist-packages/mmtbx/domains_from_pae.py usr/lib/python3.13/dist-packages/mmtbx/f_model_info.py usr/lib/python3.13/dist-packages/mmtbx/find_peaks.py usr/lib/python3.13/dist-packages/mmtbx/grow_density.py usr/lib/python3.13/dist-packages/mmtbx/invariant_domain.py usr/lib/python3.13/dist-packages/mmtbx/lattice.py usr/lib/python3.13/dist-packages/mmtbx/libtbx_refresh.py usr/lib/python3.13/dist-packages/mmtbx/map_tools.py usr/lib/python3.13/dist-packages/mmtbx/model_vs_data.py usr/lib/python3.13/dist-packages/mmtbx/msa.py usr/lib/python3.13/dist-packages/mmtbx/pdb_distances.py usr/lib/python3.13/dist-packages/mmtbx/pdb_symmetry.py usr/lib/python3.13/dist-packages/mmtbx/pdbtools.py usr/lib/python3.13/dist-packages/mmtbx/process_predicted_model.py usr/lib/python3.13/dist-packages/mmtbx/proq2.py usr/lib/python3.13/dist-packages/mmtbx/real_space_correlation.py usr/lib/python3.13/dist-packages/mmtbx/resolve_resources.py usr/lib/python3.13/dist-packages/mmtbx/restraints.py usr/lib/python3.13/dist-packages/mmtbx/run_tests.py usr/lib/python3.13/dist-packages/mmtbx/superpose.py usr/lib/python3.13/dist-packages/mmtbx/xmanip.py usr/lib/python3.13/dist-packages/mmtbx/xmanip_tasks.py usr/lib/python3.13/dist-packages/mmtbx/alignment/ usr/lib/python3.13/dist-packages/mmtbx/alignment/__init__.py usr/lib/python3.13/dist-packages/mmtbx/atomic_environment_vectors/ usr/lib/python3.13/dist-packages/mmtbx/atomic_environment_vectors/__init__.py usr/lib/python3.13/dist-packages/mmtbx/atomic_environment_vectors/tst.py usr/lib/python3.13/dist-packages/mmtbx/building/ usr/lib/python3.13/dist-packages/mmtbx/building/__init__.py usr/lib/python3.13/dist-packages/mmtbx/building/cablam_idealization.py usr/lib/python3.13/dist-packages/mmtbx/building/extend_sidechains.py usr/lib/python3.13/dist-packages/mmtbx/building/loop_idealization.py usr/lib/python3.13/dist-packages/mmtbx/building/merge_models.py usr/lib/python3.13/dist-packages/mmtbx/building/minimize_chain.py usr/lib/python3.13/dist-packages/mmtbx/building/tst_extend_sidechains.py usr/lib/python3.13/dist-packages/mmtbx/building/tst_extend_sidechains_2.py usr/lib/python3.13/dist-packages/mmtbx/building/ligands/ usr/lib/python3.13/dist-packages/mmtbx/building/ligands/__init__.py usr/lib/python3.13/dist-packages/mmtbx/building/ligands/lifi.py usr/lib/python3.13/dist-packages/mmtbx/building/ligands/tst_00.py usr/lib/python3.13/dist-packages/mmtbx/building/loop_closure/ usr/lib/python3.13/dist-packages/mmtbx/building/loop_closure/__init__.py usr/lib/python3.13/dist-packages/mmtbx/building/loop_closure/berkeley_ramalyze.py usr/lib/python3.13/dist-packages/mmtbx/building/loop_closure/ccd.py usr/lib/python3.13/dist-packages/mmtbx/building/loop_closure/starting_conformations.py usr/lib/python3.13/dist-packages/mmtbx/building/loop_closure/utils.py usr/lib/python3.13/dist-packages/mmtbx/bulk_solvent/ usr/lib/python3.13/dist-packages/mmtbx/bulk_solvent/__init__.py usr/lib/python3.13/dist-packages/mmtbx/bulk_solvent/bulk_solvent_and_scaling.py usr/lib/python3.13/dist-packages/mmtbx/bulk_solvent/example.py usr/lib/python3.13/dist-packages/mmtbx/bulk_solvent/example2.py usr/lib/python3.13/dist-packages/mmtbx/bulk_solvent/f_model_all_scales.py usr/lib/python3.13/dist-packages/mmtbx/bulk_solvent/kbu_refinery.py usr/lib/python3.13/dist-packages/mmtbx/bulk_solvent/mosaic.py usr/lib/python3.13/dist-packages/mmtbx/bulk_solvent/multi_mask_bulk_solvent.py usr/lib/python3.13/dist-packages/mmtbx/bulk_solvent/scaler.py usr/lib/python3.13/dist-packages/mmtbx/bulk_solvent/tst_aniso_scaler.py usr/lib/python3.13/dist-packages/mmtbx/bulk_solvent/tst_bulk_solvent_and_scaling.py usr/lib/python3.13/dist-packages/mmtbx/bulk_solvent/tst_fit_kexpb_to_ktotal.py usr/lib/python3.13/dist-packages/mmtbx/bulk_solvent/tst_flat_nonuniform.py usr/lib/python3.13/dist-packages/mmtbx/bulk_solvent/tst_kb_sol_u_star_fd.py usr/lib/python3.13/dist-packages/mmtbx/bulk_solvent/tst_mosaic.py usr/lib/python3.13/dist-packages/mmtbx/bulk_solvent/tst_scaler.py usr/lib/python3.13/dist-packages/mmtbx/chemical_components/ usr/lib/python3.13/dist-packages/mmtbx/chemical_components/__init__.py usr/lib/python3.13/dist-packages/mmtbx/chemical_components/cif_parser.py usr/lib/python3.13/dist-packages/mmtbx/chemical_components/tst.py usr/lib/python3.13/dist-packages/mmtbx/command_line/ usr/lib/python3.13/dist-packages/mmtbx/command_line/__init__.py usr/lib/python3.13/dist-packages/mmtbx/command_line/altloc_remediate.py usr/lib/python3.13/dist-packages/mmtbx/command_line/angle.py usr/lib/python3.13/dist-packages/mmtbx/command_line/apply_ncs_to_ligand.py usr/lib/python3.13/dist-packages/mmtbx/command_line/arginine_geometry.py usr/lib/python3.13/dist-packages/mmtbx/command_line/atom_valence_simple.py usr/lib/python3.13/dist-packages/mmtbx/command_line/barbed_wire_analysis.py usr/lib/python3.13/dist-packages/mmtbx/command_line/cablam.py usr/lib/python3.13/dist-packages/mmtbx/command_line/cablam_idealization.py usr/lib/python3.13/dist-packages/mmtbx/command_line/cbetadev.py usr/lib/python3.13/dist-packages/mmtbx/command_line/cc_star.py usr/lib/python3.13/dist-packages/mmtbx/command_line/chiral_validation.py usr/lib/python3.13/dist-packages/mmtbx/command_line/cif_as_mtz.py usr/lib/python3.13/dist-packages/mmtbx/command_line/clashscore.py usr/lib/python3.13/dist-packages/mmtbx/command_line/clashscore2.py usr/lib/python3.13/dist-packages/mmtbx/command_line/comparama.py usr/lib/python3.13/dist-packages/mmtbx/command_line/debug_riding.py usr/lib/python3.13/dist-packages/mmtbx/command_line/density_modification.py usr/lib/python3.13/dist-packages/mmtbx/command_line/development_aev.py usr/lib/python3.13/dist-packages/mmtbx/command_line/development_fem.py usr/lib/python3.13/dist-packages/mmtbx/command_line/distance_difference.py usr/lib/python3.13/dist-packages/mmtbx/command_line/dynamics.py usr/lib/python3.13/dist-packages/mmtbx/command_line/electrons.py usr/lib/python3.13/dist-packages/mmtbx/command_line/emringer.py usr/lib/python3.13/dist-packages/mmtbx/command_line/emringer_score.py usr/lib/python3.13/dist-packages/mmtbx/command_line/estimate_bijvoet_ratio.py usr/lib/python3.13/dist-packages/mmtbx/command_line/f000.py usr/lib/python3.13/dist-packages/mmtbx/command_line/fab_elbow_angle.py usr/lib/python3.13/dist-packages/mmtbx/command_line/fake_f_obs.py usr/lib/python3.13/dist-packages/mmtbx/command_line/fetch_pdb.py usr/lib/python3.13/dist-packages/mmtbx/command_line/find_peaks_holes.py usr/lib/python3.13/dist-packages/mmtbx/command_line/find_residue_in_pdb.py usr/lib/python3.13/dist-packages/mmtbx/command_line/find_tls_groups.py usr/lib/python3.13/dist-packages/mmtbx/command_line/fmodel.py usr/lib/python3.13/dist-packages/mmtbx/command_line/fobs_minus_fobs_map.py usr/lib/python3.13/dist-packages/mmtbx/command_line/geometry_minimization.py usr/lib/python3.13/dist-packages/mmtbx/command_line/grow_density.py usr/lib/python3.13/dist-packages/mmtbx/command_line/hbond.py usr/lib/python3.13/dist-packages/mmtbx/command_line/helix_sheet_recs_as_pdb_files.py usr/lib/python3.13/dist-packages/mmtbx/command_line/holton_geometry_validation.py usr/lib/python3.13/dist-packages/mmtbx/command_line/hydrogenate.py usr/lib/python3.13/dist-packages/mmtbx/command_line/kinemage.py usr/lib/python3.13/dist-packages/mmtbx/command_line/ligand_restraints_validation.py usr/lib/python3.13/dist-packages/mmtbx/command_line/map_box.py usr/lib/python3.13/dist-packages/mmtbx/command_line/map_comparison.py usr/lib/python3.13/dist-packages/mmtbx/command_line/map_to_model_histogram.py usr/lib/python3.13/dist-packages/mmtbx/command_line/map_to_structure_factors.py usr/lib/python3.13/dist-packages/mmtbx/command_line/maps.py usr/lib/python3.13/dist-packages/mmtbx/command_line/mask.py usr/lib/python3.13/dist-packages/mmtbx/command_line/massage_data.py usr/lib/python3.13/dist-packages/mmtbx/command_line/matthews.py usr/lib/python3.13/dist-packages/mmtbx/command_line/maximum_entropy_map.py usr/lib/python3.13/dist-packages/mmtbx/command_line/model_idealization.py usr/lib/python3.13/dist-packages/mmtbx/command_line/model_map.py usr/lib/python3.13/dist-packages/mmtbx/command_line/model_model_distances.py usr/lib/python3.13/dist-packages/mmtbx/command_line/model_vs_data.py usr/lib/python3.13/dist-packages/mmtbx/command_line/model_vs_map.py usr/lib/python3.13/dist-packages/mmtbx/command_line/model_vs_sequence.py usr/lib/python3.13/dist-packages/mmtbx/command_line/models_as_chains.py usr/lib/python3.13/dist-packages/mmtbx/command_line/molprobity.py usr/lib/python3.13/dist-packages/mmtbx/command_line/mon_lib_cif_triage.py usr/lib/python3.13/dist-packages/mmtbx/command_line/mp_geo.py usr/lib/python3.13/dist-packages/mmtbx/command_line/mp_validate_bonds.py usr/lib/python3.13/dist-packages/mmtbx/command_line/mtz2map.py usr/lib/python3.13/dist-packages/mmtbx/command_line/next_gen_atom_typing.py usr/lib/python3.13/dist-packages/mmtbx/command_line/nonbonded_overlaps.py usr/lib/python3.13/dist-packages/mmtbx/command_line/omegalyze.py usr/lib/python3.13/dist-packages/mmtbx/command_line/pdb_atom_selection.py usr/lib/python3.13/dist-packages/mmtbx/command_line/pdb_interpretation.py usr/lib/python3.13/dist-packages/mmtbx/command_line/pdbtools.py usr/lib/python3.13/dist-packages/mmtbx/command_line/perigee.py usr/lib/python3.13/dist-packages/mmtbx/command_line/plan_sad_experiment.py usr/lib/python3.13/dist-packages/mmtbx/command_line/polder.py usr/lib/python3.13/dist-packages/mmtbx/command_line/prepare_pdb_deposition.py usr/lib/python3.13/dist-packages/mmtbx/command_line/probe2.py usr/lib/python3.13/dist-packages/mmtbx/command_line/probescore_ligand.py usr/lib/python3.13/dist-packages/mmtbx/command_line/process_predicted_model.py usr/lib/python3.13/dist-packages/mmtbx/command_line/prune_model.py usr/lib/python3.13/dist-packages/mmtbx/command_line/quantum_interface.py usr/lib/python3.13/dist-packages/mmtbx/command_line/r_factor_statistics.py usr/lib/python3.13/dist-packages/mmtbx/command_line/rama_z.py usr/lib/python3.13/dist-packages/mmtbx/command_line/ramalyze.py usr/lib/python3.13/dist-packages/mmtbx/command_line/rank_scale_map.py usr/lib/python3.13/dist-packages/mmtbx/command_line/real_space_correlation.py usr/lib/python3.13/dist-packages/mmtbx/command_line/real_space_diff_map.py usr/lib/python3.13/dist-packages/mmtbx/command_line/rebuild_cablam_cache.py usr/lib/python3.13/dist-packages/mmtbx/command_line/rebuild_rotarama_cache.py usr/lib/python3.13/dist-packages/mmtbx/command_line/reciprocal_space_arrays.py usr/lib/python3.13/dist-packages/mmtbx/command_line/reduce2.py usr/lib/python3.13/dist-packages/mmtbx/command_line/reduce_cryoem_resolution.py usr/lib/python3.13/dist-packages/mmtbx/command_line/refine_anomalous_substructure.py usr/lib/python3.13/dist-packages/mmtbx/command_line/remove_outliers.py usr/lib/python3.13/dist-packages/mmtbx/command_line/ribbons.py usr/lib/python3.13/dist-packages/mmtbx/command_line/rigid_bond_test.py usr/lib/python3.13/dist-packages/mmtbx/command_line/ringer.py usr/lib/python3.13/dist-packages/mmtbx/command_line/rna_validate.py usr/lib/python3.13/dist-packages/mmtbx/command_line/rna_validate_bonds.py usr/lib/python3.13/dist-packages/mmtbx/command_line/rna_validate_puckers.py usr/lib/python3.13/dist-packages/mmtbx/command_line/rna_validate_suites.py usr/lib/python3.13/dist-packages/mmtbx/command_line/rotalyze.py usr/lib/python3.13/dist-packages/mmtbx/command_line/search_pdb_symmetry.py usr/lib/python3.13/dist-packages/mmtbx/command_line/secondary_structure_restraints.py usr/lib/python3.13/dist-packages/mmtbx/command_line/secondary_structure_validation.py usr/lib/python3.13/dist-packages/mmtbx/command_line/select_best_starting_model.py usr/lib/python3.13/dist-packages/mmtbx/command_line/show_r_factors_by_shell.py usr/lib/python3.13/dist-packages/mmtbx/command_line/sisa.py usr/lib/python3.13/dist-packages/mmtbx/command_line/sort_hetatms.py usr/lib/python3.13/dist-packages/mmtbx/command_line/ss_idealization.py usr/lib/python3.13/dist-packages/mmtbx/command_line/suitename.py usr/lib/python3.13/dist-packages/mmtbx/command_line/suitename_old.py usr/lib/python3.13/dist-packages/mmtbx/command_line/super.py usr/lib/python3.13/dist-packages/mmtbx/command_line/superpose.py usr/lib/python3.13/dist-packages/mmtbx/command_line/taam_minus_iam.py usr/lib/python3.13/dist-packages/mmtbx/command_line/table_one.py usr/lib/python3.13/dist-packages/mmtbx/command_line/tls.py usr/lib/python3.13/dist-packages/mmtbx/command_line/tls_analysis.py usr/lib/python3.13/dist-packages/mmtbx/command_line/tls_as_xyz.py usr/lib/python3.13/dist-packages/mmtbx/command_line/undowser.py usr/lib/python3.13/dist-packages/mmtbx/command_line/undowser2.py usr/lib/python3.13/dist-packages/mmtbx/command_line/validate_H_cl_app.py usr/lib/python3.13/dist-packages/mmtbx/command_line/validate_ligands.py usr/lib/python3.13/dist-packages/mmtbx/command_line/validation_summary.py usr/lib/python3.13/dist-packages/mmtbx/command_line/verify_mon_lib_data.py usr/lib/python3.13/dist-packages/mmtbx/command_line/water_b_factors.py usr/lib/python3.13/dist-packages/mmtbx/command_line/where_is_that_cif_file.py usr/lib/python3.13/dist-packages/mmtbx/command_line/xmanip.py usr/lib/python3.13/dist-packages/mmtbx/command_line/xtrapol8.py usr/lib/python3.13/dist-packages/mmtbx/command_line/xtriage.py usr/lib/python3.13/dist-packages/mmtbx/conformation_dependent_library/ usr/lib/python3.13/dist-packages/mmtbx/conformation_dependent_library/LinkedResidues.py usr/lib/python3.13/dist-packages/mmtbx/conformation_dependent_library/__init__.py usr/lib/python3.13/dist-packages/mmtbx/conformation_dependent_library/altloc_weighting.py usr/lib/python3.13/dist-packages/mmtbx/conformation_dependent_library/bond_angle_registry.py usr/lib/python3.13/dist-packages/mmtbx/conformation_dependent_library/cdl_database.py usr/lib/python3.13/dist-packages/mmtbx/conformation_dependent_library/cdl_setup.py usr/lib/python3.13/dist-packages/mmtbx/conformation_dependent_library/cdl_svl_database.py usr/lib/python3.13/dist-packages/mmtbx/conformation_dependent_library/cdl_utils.py usr/lib/python3.13/dist-packages/mmtbx/conformation_dependent_library/check_cdl_database.py usr/lib/python3.13/dist-packages/mmtbx/conformation_dependent_library/density_dependent_restraints.py usr/lib/python3.13/dist-packages/mmtbx/conformation_dependent_library/enol_peptide_restraints.py usr/lib/python3.13/dist-packages/mmtbx/conformation_dependent_library/histidines.py usr/lib/python3.13/dist-packages/mmtbx/conformation_dependent_library/hpdl_database.py usr/lib/python3.13/dist-packages/mmtbx/conformation_dependent_library/hydrogen_bonding.py usr/lib/python3.13/dist-packages/mmtbx/conformation_dependent_library/investigate_rotamer_space.py usr/lib/python3.13/dist-packages/mmtbx/conformation_dependent_library/mcl.py usr/lib/python3.13/dist-packages/mmtbx/conformation_dependent_library/mcl_sf4_coordination.py usr/lib/python3.13/dist-packages/mmtbx/conformation_dependent_library/metal_coordination_library.py usr/lib/python3.13/dist-packages/mmtbx/conformation_dependent_library/multi_base_class.py usr/lib/python3.13/dist-packages/mmtbx/conformation_dependent_library/multi_residue_cdl_class.py usr/lib/python3.13/dist-packages/mmtbx/conformation_dependent_library/multi_residue_class.py usr/lib/python3.13/dist-packages/mmtbx/conformation_dependent_library/nucleotides.py usr/lib/python3.13/dist-packages/mmtbx/conformation_dependent_library/omega.py usr/lib/python3.13/dist-packages/mmtbx/conformation_dependent_library/omega_database.py usr/lib/python3.13/dist-packages/mmtbx/conformation_dependent_library/pH_dependent_restraints.py usr/lib/python3.13/dist-packages/mmtbx/conformation_dependent_library/rdl_database.py usr/lib/python3.13/dist-packages/mmtbx/conformation_dependent_library/rotamers.py usr/lib/python3.13/dist-packages/mmtbx/conformation_dependent_library/sf4_restraints.py usr/lib/python3.13/dist-packages/mmtbx/conformation_dependent_library/testing_utils.py usr/lib/python3.13/dist-packages/mmtbx/conformation_dependent_library/tst_cdl.py usr/lib/python3.13/dist-packages/mmtbx/conformation_dependent_library/tst_cdl_esd.py usr/lib/python3.13/dist-packages/mmtbx/conformation_dependent_library/tst_cdl_nucleotides.py usr/lib/python3.13/dist-packages/mmtbx/conformation_dependent_library/tst_cis_c_n_ca.py usr/lib/python3.13/dist-packages/mmtbx/conformation_dependent_library/tst_enol_peptide.py usr/lib/python3.13/dist-packages/mmtbx/conformation_dependent_library/tst_hpdl.py usr/lib/python3.13/dist-packages/mmtbx/conformation_dependent_library/tst_mcl_01.py usr/lib/python3.13/dist-packages/mmtbx/conformation_dependent_library/tst_mcl_02.py usr/lib/python3.13/dist-packages/mmtbx/conformation_dependent_library/tst_mcl_03.py usr/lib/python3.13/dist-packages/mmtbx/conformation_dependent_library/tst_multi_residue_rna.py usr/lib/python3.13/dist-packages/mmtbx/conformation_dependent_library/tst_mutli_residue.py usr/lib/python3.13/dist-packages/mmtbx/conformation_dependent_library/tst_omega_cdl.py usr/lib/python3.13/dist-packages/mmtbx/conformation_dependent_library/tst_pH_mechanism.py usr/lib/python3.13/dist-packages/mmtbx/conformation_dependent_library/tst_poly_ca_multi_residue.py usr/lib/python3.13/dist-packages/mmtbx/conformation_dependent_library/tst_rdl.py usr/lib/python3.13/dist-packages/mmtbx/conformation_dependent_library/tst_rna_dna_fragments.py usr/lib/python3.13/dist-packages/mmtbx/conformation_dependent_library/utils.py usr/lib/python3.13/dist-packages/mmtbx/den/ usr/lib/python3.13/dist-packages/mmtbx/den/__init__.py usr/lib/python3.13/dist-packages/mmtbx/den/plot_weights.py usr/lib/python3.13/dist-packages/mmtbx/den/refinement.py usr/lib/python3.13/dist-packages/mmtbx/density_modification/ usr/lib/python3.13/dist-packages/mmtbx/density_modification/__init__.py usr/lib/python3.13/dist-packages/mmtbx/density_modification/tst_density_modification.py usr/lib/python3.13/dist-packages/mmtbx/disorder/ usr/lib/python3.13/dist-packages/mmtbx/disorder/__init__.py usr/lib/python3.13/dist-packages/mmtbx/disorder/analyze_model.py usr/lib/python3.13/dist-packages/mmtbx/disorder/backbone.py usr/lib/python3.13/dist-packages/mmtbx/disorder/tst.py usr/lib/python3.13/dist-packages/mmtbx/disorder/tst_analyze_model.py usr/lib/python3.13/dist-packages/mmtbx/disorder/tst_backbone.py usr/lib/python3.13/dist-packages/mmtbx/dynamics/ usr/lib/python3.13/dist-packages/mmtbx/dynamics/__init__.py usr/lib/python3.13/dist-packages/mmtbx/dynamics/cartesian_dynamics.py usr/lib/python3.13/dist-packages/mmtbx/dynamics/constants.py usr/lib/python3.13/dist-packages/mmtbx/dynamics/ensemble_cd.py usr/lib/python3.13/dist-packages/mmtbx/dynamics/simulated_annealing.py usr/lib/python3.13/dist-packages/mmtbx/dynamics/tst_cartesian_dynamics.py usr/lib/python3.13/dist-packages/mmtbx/dynamics/tst_sa.py usr/lib/python3.13/dist-packages/mmtbx/f_model/ usr/lib/python3.13/dist-packages/mmtbx/f_model/__init__.py usr/lib/python3.13/dist-packages/mmtbx/f_model/f_model.py usr/lib/python3.13/dist-packages/mmtbx/f_model/f_model_info.py usr/lib/python3.13/dist-packages/mmtbx/geometry/ usr/lib/python3.13/dist-packages/mmtbx/geometry/__init__.py usr/lib/python3.13/dist-packages/mmtbx/geometry/altloc.py usr/lib/python3.13/dist-packages/mmtbx/geometry/asa.py usr/lib/python3.13/dist-packages/mmtbx/geometry/clash.py usr/lib/python3.13/dist-packages/mmtbx/geometry/indexing.py usr/lib/python3.13/dist-packages/mmtbx/geometry/shared_types.py usr/lib/python3.13/dist-packages/mmtbx/geometry/sphere_surface_sampling.py usr/lib/python3.13/dist-packages/mmtbx/geometry/topology.py usr/lib/python3.13/dist-packages/mmtbx/geometry_restraints/ usr/lib/python3.13/dist-packages/mmtbx/geometry_restraints/__init__.py usr/lib/python3.13/dist-packages/mmtbx/geometry_restraints/afitt.py usr/lib/python3.13/dist-packages/mmtbx/geometry_restraints/base_qm_manager.py usr/lib/python3.13/dist-packages/mmtbx/geometry_restraints/c_beta.py usr/lib/python3.13/dist-packages/mmtbx/geometry_restraints/external.py usr/lib/python3.13/dist-packages/mmtbx/geometry_restraints/geo_file_parsing.py usr/lib/python3.13/dist-packages/mmtbx/geometry_restraints/mopac_manager.py usr/lib/python3.13/dist-packages/mmtbx/geometry_restraints/orca_manager.py usr/lib/python3.13/dist-packages/mmtbx/geometry_restraints/qi_utils.py usr/lib/python3.13/dist-packages/mmtbx/geometry_restraints/qm_manager.py usr/lib/python3.13/dist-packages/mmtbx/geometry_restraints/quantum_interface.py usr/lib/python3.13/dist-packages/mmtbx/geometry_restraints/quantum_restraints_manager.py usr/lib/python3.13/dist-packages/mmtbx/geometry_restraints/ramachandran.py usr/lib/python3.13/dist-packages/mmtbx/geometry_restraints/reference.py usr/lib/python3.13/dist-packages/mmtbx/geometry_restraints/tst_c_beta_restraints.py usr/lib/python3.13/dist-packages/mmtbx/geometry_restraints/tst_geo_file_parsing.py usr/lib/python3.13/dist-packages/mmtbx/geometry_restraints/tst_manager.py usr/lib/python3.13/dist-packages/mmtbx/geometry_restraints/tst_ramachandran.py usr/lib/python3.13/dist-packages/mmtbx/geometry_restraints/tst_reference_coordinate.py usr/lib/python3.13/dist-packages/mmtbx/geometry_restraints/tst_reference_coordinate2.py usr/lib/python3.13/dist-packages/mmtbx/geometry_restraints/torsion_restraints/ usr/lib/python3.13/dist-packages/mmtbx/geometry_restraints/torsion_restraints/__init__.py usr/lib/python3.13/dist-packages/mmtbx/geometry_restraints/torsion_restraints/reference_model.py usr/lib/python3.13/dist-packages/mmtbx/geometry_restraints/torsion_restraints/rotamer_search.py usr/lib/python3.13/dist-packages/mmtbx/geometry_restraints/torsion_restraints/torsion_ncs.py usr/lib/python3.13/dist-packages/mmtbx/geometry_restraints/torsion_restraints/tst_reference_model.py usr/lib/python3.13/dist-packages/mmtbx/geometry_restraints/torsion_restraints/tst_reference_model_ligands.py usr/lib/python3.13/dist-packages/mmtbx/geometry_restraints/torsion_restraints/tst_torsion_ncs.py usr/lib/python3.13/dist-packages/mmtbx/geometry_restraints/torsion_restraints/utils.py usr/lib/python3.13/dist-packages/mmtbx/hydrogens/ usr/lib/python3.13/dist-packages/mmtbx/hydrogens/__init__.py usr/lib/python3.13/dist-packages/mmtbx/hydrogens/build_hydrogens.py usr/lib/python3.13/dist-packages/mmtbx/hydrogens/connectivity.py usr/lib/python3.13/dist-packages/mmtbx/hydrogens/find.py usr/lib/python3.13/dist-packages/mmtbx/hydrogens/neutron_utils.py usr/lib/python3.13/dist-packages/mmtbx/hydrogens/parameterization.py usr/lib/python3.13/dist-packages/mmtbx/hydrogens/reduce_hydrogen.py usr/lib/python3.13/dist-packages/mmtbx/hydrogens/riding.py usr/lib/python3.13/dist-packages/mmtbx/hydrogens/specialised_hydrogen_atoms.py usr/lib/python3.13/dist-packages/mmtbx/hydrogens/tst.py usr/lib/python3.13/dist-packages/mmtbx/hydrogens/tst_add_hydrogen.py usr/lib/python3.13/dist-packages/mmtbx/hydrogens/tst_add_hydrogen_0.py usr/lib/python3.13/dist-packages/mmtbx/hydrogens/tst_add_hydrogen_1.py usr/lib/python3.13/dist-packages/mmtbx/hydrogens/tst_add_hydrogen_2.py usr/lib/python3.13/dist-packages/mmtbx/hydrogens/tst_add_hydrogen_3.py usr/lib/python3.13/dist-packages/mmtbx/hydrogens/tst_add_hydrogen_4.py usr/lib/python3.13/dist-packages/mmtbx/hydrogens/tst_add_hydrogen_5.py usr/lib/python3.13/dist-packages/mmtbx/hydrogens/tst_add_hydrogen_6.py usr/lib/python3.13/dist-packages/mmtbx/hydrogens/tst_add_hydrogen_7.py usr/lib/python3.13/dist-packages/mmtbx/hydrogens/tst_add_hydrogen_8.py usr/lib/python3.13/dist-packages/mmtbx/hydrogens/tst_add_hydrogen_9.py usr/lib/python3.13/dist-packages/mmtbx/hydrogens/tst_add_hydrogen_time.py usr/lib/python3.13/dist-packages/mmtbx/hydrogens/tst_connectivity.py usr/lib/python3.13/dist-packages/mmtbx/hydrogens/tst_parameterization_1.py usr/lib/python3.13/dist-packages/mmtbx/hydrogens/tst_parameterization_2.py usr/lib/python3.13/dist-packages/mmtbx/hydrogens/tst_parameterization_3.py usr/lib/python3.13/dist-packages/mmtbx/hydrogens/tst_parameterization_4.py usr/lib/python3.13/dist-packages/mmtbx/hydrogens/tst_parameterization_5.py usr/lib/python3.13/dist-packages/mmtbx/hydrogens/tst_parameterization_6.py usr/lib/python3.13/dist-packages/mmtbx/hydrogens/tst_parameterization_7.py usr/lib/python3.13/dist-packages/mmtbx/hydrogens/tst_parameterization_8.py usr/lib/python3.13/dist-packages/mmtbx/hydrogens/tst_parameterization_9.py usr/lib/python3.13/dist-packages/mmtbx/hydrogens/tst_riding_coefficients.py usr/lib/python3.13/dist-packages/mmtbx/hydrogens/tst_riding_fd_1.py usr/lib/python3.13/dist-packages/mmtbx/hydrogens/tst_riding_fd_2.py usr/lib/python3.13/dist-packages/mmtbx/hydrogens/tst_riding_fd_3.py usr/lib/python3.13/dist-packages/mmtbx/hydrogens/tst_riding_fd_4.py usr/lib/python3.13/dist-packages/mmtbx/hydrogens/tst_riding_fd_5.py usr/lib/python3.13/dist-packages/mmtbx/hydrogens/tst_riding_manager.py usr/lib/python3.13/dist-packages/mmtbx/hydrogens/tst_riding_minimize.py usr/lib/python3.13/dist-packages/mmtbx/hydrogens/tst_validate_H.py usr/lib/python3.13/dist-packages/mmtbx/hydrogens/validate_H.py usr/lib/python3.13/dist-packages/mmtbx/ias/ usr/lib/python3.13/dist-packages/mmtbx/ias/__init__.py usr/lib/python3.13/dist-packages/mmtbx/ias/tst_ias.py usr/lib/python3.13/dist-packages/mmtbx/idealized_aa_residues/ usr/lib/python3.13/dist-packages/mmtbx/idealized_aa_residues/__init__.py usr/lib/python3.13/dist-packages/mmtbx/idealized_aa_residues/all_his.py usr/lib/python3.13/dist-packages/mmtbx/idealized_aa_residues/rotamer_manager.py usr/lib/python3.13/dist-packages/mmtbx/idealized_aa_residues/sample_rotamers.py usr/lib/python3.13/dist-packages/mmtbx/idealized_aa_residues/tst.py usr/lib/python3.13/dist-packages/mmtbx/ions/ usr/lib/python3.13/dist-packages/mmtbx/ions/__init__.py usr/lib/python3.13/dist-packages/mmtbx/ions/build.py usr/lib/python3.13/dist-packages/mmtbx/ions/environment.py usr/lib/python3.13/dist-packages/mmtbx/ions/geometry.py usr/lib/python3.13/dist-packages/mmtbx/ions/halides.py usr/lib/python3.13/dist-packages/mmtbx/ions/identify.py usr/lib/python3.13/dist-packages/mmtbx/ions/tst_environment.py usr/lib/python3.13/dist-packages/mmtbx/ions/tst_geometries.py usr/lib/python3.13/dist-packages/mmtbx/ions/tst_parameters.py usr/lib/python3.13/dist-packages/mmtbx/ions/tst_pick_approx_zn.py usr/lib/python3.13/dist-packages/mmtbx/ions/tst_pick_ca.py usr/lib/python3.13/dist-packages/mmtbx/ions/tst_pick_ca_svm.py usr/lib/python3.13/dist-packages/mmtbx/ions/tst_pick_k.py usr/lib/python3.13/dist-packages/mmtbx/ions/tst_pick_mg.py usr/lib/python3.13/dist-packages/mmtbx/ions/tst_pickle.py usr/lib/python3.13/dist-packages/mmtbx/ions/tst_symmetry_axis.py usr/lib/python3.13/dist-packages/mmtbx/ions/tst_utils.py usr/lib/python3.13/dist-packages/mmtbx/ions/tst_validate_ca.py usr/lib/python3.13/dist-packages/mmtbx/ions/tst_validate_mg.py usr/lib/python3.13/dist-packages/mmtbx/ions/utils.py usr/lib/python3.13/dist-packages/mmtbx/ions/svm/ usr/lib/python3.13/dist-packages/mmtbx/ions/svm/__init__.py usr/lib/python3.13/dist-packages/mmtbx/ions/svm/dump_sites.py usr/lib/python3.13/dist-packages/mmtbx/ions/svm/tst_classifier_01.py usr/lib/python3.13/dist-packages/mmtbx/ions/svm/tst_classifier_02.py usr/lib/python3.13/dist-packages/mmtbx/ions/svm/utils.py usr/lib/python3.13/dist-packages/mmtbx/kinemage/ usr/lib/python3.13/dist-packages/mmtbx/kinemage/__init__.py usr/lib/python3.13/dist-packages/mmtbx/kinemage/nrubs.py usr/lib/python3.13/dist-packages/mmtbx/kinemage/ribbons.py usr/lib/python3.13/dist-packages/mmtbx/kinemage/validation.py usr/lib/python3.13/dist-packages/mmtbx/ligands/ usr/lib/python3.13/dist-packages/mmtbx/ligands/__init__.py usr/lib/python3.13/dist-packages/mmtbx/ligands/chemistry.py usr/lib/python3.13/dist-packages/mmtbx/ligands/elbow_utils.py usr/lib/python3.13/dist-packages/mmtbx/ligands/electrons.py usr/lib/python3.13/dist-packages/mmtbx/ligands/hierarchy_utils.py usr/lib/python3.13/dist-packages/mmtbx/ligands/rdkit_utils.py usr/lib/python3.13/dist-packages/mmtbx/ligands/ready_set_basics.py usr/lib/python3.13/dist-packages/mmtbx/ligands/ready_set_utils.py usr/lib/python3.13/dist-packages/mmtbx/ligands/tst_electron_scripting.py usr/lib/python3.13/dist-packages/mmtbx/ligands/tst_ready_set_utils.py usr/lib/python3.13/dist-packages/mmtbx/ligands/tst_xtal_screens.py usr/lib/python3.13/dist-packages/mmtbx/ligands/xtal_screens.py usr/lib/python3.13/dist-packages/mmtbx/maps/ usr/lib/python3.13/dist-packages/mmtbx/maps/__init__.py usr/lib/python3.13/dist-packages/mmtbx/maps/composite_omit_map.py usr/lib/python3.13/dist-packages/mmtbx/maps/correlation.py usr/lib/python3.13/dist-packages/mmtbx/maps/fem.py usr/lib/python3.13/dist-packages/mmtbx/maps/fobs_minus_fobs_map.py usr/lib/python3.13/dist-packages/mmtbx/maps/kick.py usr/lib/python3.13/dist-packages/mmtbx/maps/map_model_cc.py usr/lib/python3.13/dist-packages/mmtbx/maps/mtriage.py usr/lib/python3.13/dist-packages/mmtbx/maps/polder.py usr/lib/python3.13/dist-packages/mmtbx/maps/superpose.py usr/lib/python3.13/dist-packages/mmtbx/maps/tst_composite_omit_map.py usr/lib/python3.13/dist-packages/mmtbx/maps/tst_composite_omit_map_2.py usr/lib/python3.13/dist-packages/mmtbx/maps/tst_composite_omit_map_3.py usr/lib/python3.13/dist-packages/mmtbx/maps/tst_correlation.py usr/lib/python3.13/dist-packages/mmtbx/maps/tst_map_model_cc_and_vals_per_atom_xtal.py usr/lib/python3.13/dist-packages/mmtbx/maps/utils.py usr/lib/python3.13/dist-packages/mmtbx/maps/xtrapol8.py usr/lib/python3.13/dist-packages/mmtbx/masks/ usr/lib/python3.13/dist-packages/mmtbx/masks/__init__.py usr/lib/python3.13/dist-packages/mmtbx/masks/tst_asu_mask.py usr/lib/python3.13/dist-packages/mmtbx/masks/tst_masks.py usr/lib/python3.13/dist-packages/mmtbx/max_lik/ usr/lib/python3.13/dist-packages/mmtbx/max_lik/__init__.py usr/lib/python3.13/dist-packages/mmtbx/max_lik/max_like_non_uniform.py usr/lib/python3.13/dist-packages/mmtbx/max_lik/maxlik.py usr/lib/python3.13/dist-packages/mmtbx/max_lik/tst_max_lik.py usr/lib/python3.13/dist-packages/mmtbx/max_lik/tst_maxlik.py usr/lib/python3.13/dist-packages/mmtbx/model/ usr/lib/python3.13/dist-packages/mmtbx/model/__init__.py usr/lib/python3.13/dist-packages/mmtbx/model/model.py usr/lib/python3.13/dist-packages/mmtbx/model/restraints.py usr/lib/python3.13/dist-packages/mmtbx/model/statistics.py usr/lib/python3.13/dist-packages/mmtbx/model/utils.py usr/lib/python3.13/dist-packages/mmtbx/monomer_library/ usr/lib/python3.13/dist-packages/mmtbx/monomer_library/__init__.py usr/lib/python3.13/dist-packages/mmtbx/monomer_library/bondlength_defaults.py usr/lib/python3.13/dist-packages/mmtbx/monomer_library/cif_triage.py usr/lib/python3.13/dist-packages/mmtbx/monomer_library/cif_types.py usr/lib/python3.13/dist-packages/mmtbx/monomer_library/conformation_dependent_restraints.py usr/lib/python3.13/dist-packages/mmtbx/monomer_library/conv_v2_v3.py usr/lib/python3.13/dist-packages/mmtbx/monomer_library/correct_hydrogen_geometries.py usr/lib/python3.13/dist-packages/mmtbx/monomer_library/geostd_utils.py usr/lib/python3.13/dist-packages/mmtbx/monomer_library/glyco_chiral_values.py usr/lib/python3.13/dist-packages/mmtbx/monomer_library/glyco_utils.py usr/lib/python3.13/dist-packages/mmtbx/monomer_library/hydrogen_restrictions.py usr/lib/python3.13/dist-packages/mmtbx/monomer_library/idealized_aa.py usr/lib/python3.13/dist-packages/mmtbx/monomer_library/linking_mixins.py usr/lib/python3.13/dist-packages/mmtbx/monomer_library/linking_setup.py usr/lib/python3.13/dist-packages/mmtbx/monomer_library/linking_utils.py usr/lib/python3.13/dist-packages/mmtbx/monomer_library/mmtbx_utils.py usr/lib/python3.13/dist-packages/mmtbx/monomer_library/pdb_interpretation.py usr/lib/python3.13/dist-packages/mmtbx/monomer_library/populate_auto_linking_origin_ids.py usr/lib/python3.13/dist-packages/mmtbx/monomer_library/rna_sugar_pucker_analysis.py usr/lib/python3.13/dist-packages/mmtbx/monomer_library/rotamer_utils.py usr/lib/python3.13/dist-packages/mmtbx/monomer_library/server.py usr/lib/python3.13/dist-packages/mmtbx/monomer_library/tst_all_cif_files.py usr/lib/python3.13/dist-packages/mmtbx/monomer_library/tst_carbo_linking.py usr/lib/python3.13/dist-packages/mmtbx/monomer_library/tst_chg.py usr/lib/python3.13/dist-packages/mmtbx/monomer_library/tst_cif_triage.py usr/lib/python3.13/dist-packages/mmtbx/monomer_library/tst_cif_types.py usr/lib/python3.13/dist-packages/mmtbx/monomer_library/tst_correct_hydrogens.py usr/lib/python3.13/dist-packages/mmtbx/monomer_library/tst_deuterium_terminii.py usr/lib/python3.13/dist-packages/mmtbx/monomer_library/tst_geo_reduce_for_tardy.py usr/lib/python3.13/dist-packages/mmtbx/monomer_library/tst_glyco_coordination.py usr/lib/python3.13/dist-packages/mmtbx/monomer_library/tst_glyco_hand.py usr/lib/python3.13/dist-packages/mmtbx/monomer_library/tst_idealized_aa.py usr/lib/python3.13/dist-packages/mmtbx/monomer_library/tst_iron_sulfur_clusters.py usr/lib/python3.13/dist-packages/mmtbx/monomer_library/tst_linking.py usr/lib/python3.13/dist-packages/mmtbx/monomer_library/tst_metal_coordination.py usr/lib/python3.13/dist-packages/mmtbx/monomer_library/tst_motif.py usr/lib/python3.13/dist-packages/mmtbx/monomer_library/tst_neutron_distance.py usr/lib/python3.13/dist-packages/mmtbx/monomer_library/tst_paral_geo.py usr/lib/python3.13/dist-packages/mmtbx/monomer_library/tst_pdb_interpretation.py usr/lib/python3.13/dist-packages/mmtbx/monomer_library/tst_pdb_interpretation_2.py usr/lib/python3.13/dist-packages/mmtbx/monomer_library/tst_pdb_interpretation_3.py usr/lib/python3.13/dist-packages/mmtbx/monomer_library/tst_pdb_interpretation_4.py usr/lib/python3.13/dist-packages/mmtbx/monomer_library/tst_pdb_interpretation_5.py usr/lib/python3.13/dist-packages/mmtbx/monomer_library/tst_pdb_interpretation_ncs_processing.py usr/lib/python3.13/dist-packages/mmtbx/monomer_library/tst_protein_interpretation.py usr/lib/python3.13/dist-packages/mmtbx/monomer_library/tst_rna_dna_interpretation.py usr/lib/python3.13/dist-packages/mmtbx/monomer_library/tst_rna_sugar_pucker_analysis.py usr/lib/python3.13/dist-packages/mmtbx/monomer_library/tst_rotamer_utils.py usr/lib/python3.13/dist-packages/mmtbx/monomer_library/tst_selection.py usr/lib/python3.13/dist-packages/mmtbx/monomer_library/tst_server.py usr/lib/python3.13/dist-packages/mmtbx/monomer_library/tst_superpose_ideal.py usr/lib/python3.13/dist-packages/mmtbx/monomer_library/tst_tyr_from_gly_and_bnz.py usr/lib/python3.13/dist-packages/mmtbx/monomer_library/tst_user_supplied_library.py usr/lib/python3.13/dist-packages/mmtbx/nci/ usr/lib/python3.13/dist-packages/mmtbx/nci/__init__.py usr/lib/python3.13/dist-packages/mmtbx/nci/data_filtering.py usr/lib/python3.13/dist-packages/mmtbx/nci/hbond.py usr/lib/python3.13/dist-packages/mmtbx/nci/skew_kurt_plot.py usr/lib/python3.13/dist-packages/mmtbx/nci/tst_hbond.py usr/lib/python3.13/dist-packages/mmtbx/ncs/ usr/lib/python3.13/dist-packages/mmtbx/ncs/__init__.py usr/lib/python3.13/dist-packages/mmtbx/ncs/cartesian_restraints.py usr/lib/python3.13/dist-packages/mmtbx/ncs/ligands.py usr/lib/python3.13/dist-packages/mmtbx/ncs/ncs.py usr/lib/python3.13/dist-packages/mmtbx/ncs/ncs_params.py usr/lib/python3.13/dist-packages/mmtbx/ncs/ncs_restraints_group_list.py usr/lib/python3.13/dist-packages/mmtbx/ncs/ncs_search.py usr/lib/python3.13/dist-packages/mmtbx/ncs/ncs_utils.py usr/lib/python3.13/dist-packages/mmtbx/ncs/tncs.py usr/lib/python3.13/dist-packages/mmtbx/pair_interaction/ usr/lib/python3.13/dist-packages/mmtbx/pair_interaction/__init__.py usr/lib/python3.13/dist-packages/mmtbx/pair_interaction/pair_interaction.py usr/lib/python3.13/dist-packages/mmtbx/pair_interaction/tst_00.py usr/lib/python3.13/dist-packages/mmtbx/pair_interaction/tst_01.py usr/lib/python3.13/dist-packages/mmtbx/pair_interaction/tst_02.py usr/lib/python3.13/dist-packages/mmtbx/pair_interaction/tst_03.py usr/lib/python3.13/dist-packages/mmtbx/pair_interaction/tst_04.py usr/lib/python3.13/dist-packages/mmtbx/pair_interaction/tst_05.py usr/lib/python3.13/dist-packages/mmtbx/polygon/ usr/lib/python3.13/dist-packages/mmtbx/polygon/__init__.py usr/lib/python3.13/dist-packages/mmtbx/polygon/output.py usr/lib/python3.13/dist-packages/mmtbx/polygon/tst.py usr/lib/python3.13/dist-packages/mmtbx/polygon/tst_gui.py usr/lib/python3.13/dist-packages/mmtbx/polygon/tst_polygon_data.py usr/lib/python3.13/dist-packages/mmtbx/probe/ usr/lib/python3.13/dist-packages/mmtbx/probe/AtomTypes.py usr/lib/python3.13/dist-packages/mmtbx/probe/CompareOriginalAndNewProbeAtomInfo.py usr/lib/python3.13/dist-packages/mmtbx/probe/Helpers.py usr/lib/python3.13/dist-packages/mmtbx/probe/__init__.py usr/lib/python3.13/dist-packages/mmtbx/probe/tst_mmtbx_probe_ext.py usr/lib/python3.13/dist-packages/mmtbx/programs/ usr/lib/python3.13/dist-packages/mmtbx/programs/__init__.py usr/lib/python3.13/dist-packages/mmtbx/programs/arginine_geometry.py usr/lib/python3.13/dist-packages/mmtbx/programs/atom_selection.py usr/lib/python3.13/dist-packages/mmtbx/programs/atom_valence_simple.py usr/lib/python3.13/dist-packages/mmtbx/programs/barbed_wire_analysis.py usr/lib/python3.13/dist-packages/mmtbx/programs/cablam.py usr/lib/python3.13/dist-packages/mmtbx/programs/cablam_idealization.py usr/lib/python3.13/dist-packages/mmtbx/programs/cbetadev.py usr/lib/python3.13/dist-packages/mmtbx/programs/chiral_validation.py usr/lib/python3.13/dist-packages/mmtbx/programs/clashscore.py usr/lib/python3.13/dist-packages/mmtbx/programs/clashscore2.py usr/lib/python3.13/dist-packages/mmtbx/programs/comparama.py usr/lib/python3.13/dist-packages/mmtbx/programs/debug_riding.py usr/lib/python3.13/dist-packages/mmtbx/programs/elbow_services.py usr/lib/python3.13/dist-packages/mmtbx/programs/emringer.py usr/lib/python3.13/dist-packages/mmtbx/programs/fetch.py usr/lib/python3.13/dist-packages/mmtbx/programs/fmodel.py usr/lib/python3.13/dist-packages/mmtbx/programs/hbond.py usr/lib/python3.13/dist-packages/mmtbx/programs/holton_geometry_validation.py usr/lib/python3.13/dist-packages/mmtbx/programs/hydrogenate.py usr/lib/python3.13/dist-packages/mmtbx/programs/ligand_restraints_validation.py usr/lib/python3.13/dist-packages/mmtbx/programs/mask.py usr/lib/python3.13/dist-packages/mmtbx/programs/matthews.py usr/lib/python3.13/dist-packages/mmtbx/programs/model_vs_sequence.py usr/lib/python3.13/dist-packages/mmtbx/programs/mp_validate_bonds.py usr/lib/python3.13/dist-packages/mmtbx/programs/next_gen_atom_typing.py usr/lib/python3.13/dist-packages/mmtbx/programs/nonbonded_overlaps.py usr/lib/python3.13/dist-packages/mmtbx/programs/omegalyze.py usr/lib/python3.13/dist-packages/mmtbx/programs/pdb_as_cif.py usr/lib/python3.13/dist-packages/mmtbx/programs/pdbtools.py usr/lib/python3.13/dist-packages/mmtbx/programs/polder.py usr/lib/python3.13/dist-packages/mmtbx/programs/prepare_pdb_deposition.py usr/lib/python3.13/dist-packages/mmtbx/programs/probe2.py usr/lib/python3.13/dist-packages/mmtbx/programs/probescore_ligand.py usr/lib/python3.13/dist-packages/mmtbx/programs/process_predicted_model.py usr/lib/python3.13/dist-packages/mmtbx/programs/quantum_interface.py usr/lib/python3.13/dist-packages/mmtbx/programs/rama_z.py usr/lib/python3.13/dist-packages/mmtbx/programs/ramalyze.py usr/lib/python3.13/dist-packages/mmtbx/programs/real_space_correlation.py usr/lib/python3.13/dist-packages/mmtbx/programs/reduce2.py usr/lib/python3.13/dist-packages/mmtbx/programs/reduce_cryoem_resolution.py usr/lib/python3.13/dist-packages/mmtbx/programs/ribbons.py usr/lib/python3.13/dist-packages/mmtbx/programs/rna_validate.py usr/lib/python3.13/dist-packages/mmtbx/programs/rna_validate_bonds.py usr/lib/python3.13/dist-packages/mmtbx/programs/rna_validate_puckers.py usr/lib/python3.13/dist-packages/mmtbx/programs/rna_validate_suites.py usr/lib/python3.13/dist-packages/mmtbx/programs/rotalyze.py usr/lib/python3.13/dist-packages/mmtbx/programs/ss_idealization.py usr/lib/python3.13/dist-packages/mmtbx/programs/ss_validation.py usr/lib/python3.13/dist-packages/mmtbx/programs/suitename.py usr/lib/python3.13/dist-packages/mmtbx/programs/suitename_old.py usr/lib/python3.13/dist-packages/mmtbx/programs/taam_minus_iam.py usr/lib/python3.13/dist-packages/mmtbx/programs/undowser.py usr/lib/python3.13/dist-packages/mmtbx/programs/undowser2.py usr/lib/python3.13/dist-packages/mmtbx/programs/validate_ligands.py usr/lib/python3.13/dist-packages/mmtbx/programs/water_b_factors.py usr/lib/python3.13/dist-packages/mmtbx/programs/xtrapol8.py usr/lib/python3.13/dist-packages/mmtbx/real_space/ usr/lib/python3.13/dist-packages/mmtbx/real_space/__init__.py usr/lib/python3.13/dist-packages/mmtbx/real_space/tst.py usr/lib/python3.13/dist-packages/mmtbx/reduce/ usr/lib/python3.13/dist-packages/mmtbx/reduce/InteractionGraph.py usr/lib/python3.13/dist-packages/mmtbx/reduce/Movers.py usr/lib/python3.13/dist-packages/mmtbx/reduce/Optimizers.py usr/lib/python3.13/dist-packages/mmtbx/reduce/__init__.py usr/lib/python3.13/dist-packages/mmtbx/reduce/tst_mmtbx_reduce_ext.py usr/lib/python3.13/dist-packages/mmtbx/refinement/ usr/lib/python3.13/dist-packages/mmtbx/refinement/__init__.py usr/lib/python3.13/dist-packages/mmtbx/refinement/adp_refinement.py usr/lib/python3.13/dist-packages/mmtbx/refinement/anomalous_scatterer_groups.py usr/lib/python3.13/dist-packages/mmtbx/refinement/calculators.py usr/lib/python3.13/dist-packages/mmtbx/refinement/data.py usr/lib/python3.13/dist-packages/mmtbx/refinement/energy_monitor.py usr/lib/python3.13/dist-packages/mmtbx/refinement/flip_peptide_side_chain.py usr/lib/python3.13/dist-packages/mmtbx/refinement/geometry_minimization.py usr/lib/python3.13/dist-packages/mmtbx/refinement/group.py usr/lib/python3.13/dist-packages/mmtbx/refinement/inspect_tardy_trajectory.py usr/lib/python3.13/dist-packages/mmtbx/refinement/minimization.py usr/lib/python3.13/dist-packages/mmtbx/refinement/minimization_monitor.py usr/lib/python3.13/dist-packages/mmtbx/refinement/minimization_ncs_constraints.py usr/lib/python3.13/dist-packages/mmtbx/refinement/occupancies.py usr/lib/python3.13/dist-packages/mmtbx/refinement/orca.py usr/lib/python3.13/dist-packages/mmtbx/refinement/print_statistics.py usr/lib/python3.13/dist-packages/mmtbx/refinement/refinement_flags.py usr/lib/python3.13/dist-packages/mmtbx/refinement/restraints.py usr/lib/python3.13/dist-packages/mmtbx/refinement/rigid_body.py usr/lib/python3.13/dist-packages/mmtbx/refinement/select_best_starting_model.py usr/lib/python3.13/dist-packages/mmtbx/refinement/tardy.py usr/lib/python3.13/dist-packages/mmtbx/refinement/targets.py usr/lib/python3.13/dist-packages/mmtbx/refinement/tst_anomalous_scatterer_groups.py usr/lib/python3.13/dist-packages/mmtbx/refinement/tst_fit_rotamers.py usr/lib/python3.13/dist-packages/mmtbx/refinement/tst_group.py usr/lib/python3.13/dist-packages/mmtbx/refinement/tst_group_2.py usr/lib/python3.13/dist-packages/mmtbx/refinement/tst_misc.py usr/lib/python3.13/dist-packages/mmtbx/refinement/tst_occupancy_selections.py usr/lib/python3.13/dist-packages/mmtbx/refinement/tst_real_space_simple.py usr/lib/python3.13/dist-packages/mmtbx/refinement/tst_refinement_flags.py usr/lib/python3.13/dist-packages/mmtbx/refinement/tst_rigid_body.py usr/lib/python3.13/dist-packages/mmtbx/refinement/tst_rigid_body_groups_from_pdb_chains.py usr/lib/python3.13/dist-packages/mmtbx/refinement/tst_select_best_starting_model.py usr/lib/python3.13/dist-packages/mmtbx/refinement/utils.py usr/lib/python3.13/dist-packages/mmtbx/refinement/weights.py usr/lib/python3.13/dist-packages/mmtbx/refinement/weights_params.py usr/lib/python3.13/dist-packages/mmtbx/refinement/wrappers.py usr/lib/python3.13/dist-packages/mmtbx/refinement/wx_tardy_pdb.py usr/lib/python3.13/dist-packages/mmtbx/refinement/ensemble_refinement/ usr/lib/python3.13/dist-packages/mmtbx/refinement/ensemble_refinement/__init__.py usr/lib/python3.13/dist-packages/mmtbx/refinement/ensemble_refinement/ensemble_probability.py usr/lib/python3.13/dist-packages/mmtbx/refinement/ensemble_refinement/ensemble_utils.py usr/lib/python3.13/dist-packages/mmtbx/refinement/real_space/ usr/lib/python3.13/dist-packages/mmtbx/refinement/real_space/__init__.py usr/lib/python3.13/dist-packages/mmtbx/refinement/real_space/adp.py usr/lib/python3.13/dist-packages/mmtbx/refinement/real_space/explode_and_refine.py usr/lib/python3.13/dist-packages/mmtbx/refinement/real_space/fit_his.py usr/lib/python3.13/dist-packages/mmtbx/refinement/real_space/fit_residue.py usr/lib/python3.13/dist-packages/mmtbx/refinement/real_space/fit_residues.py usr/lib/python3.13/dist-packages/mmtbx/refinement/real_space/fit_small_molecule.py usr/lib/python3.13/dist-packages/mmtbx/refinement/real_space/fit_water.py usr/lib/python3.13/dist-packages/mmtbx/refinement/real_space/individual_sites.py usr/lib/python3.13/dist-packages/mmtbx/refinement/real_space/occupancy.py usr/lib/python3.13/dist-packages/mmtbx/refinement/real_space/rigid_body.py usr/lib/python3.13/dist-packages/mmtbx/refinement/real_space/tst_aa_residue_axes_and_clusters.py usr/lib/python3.13/dist-packages/mmtbx/refinement/real_space/tst_fit_residue_0.py usr/lib/python3.13/dist-packages/mmtbx/refinement/real_space/tst_fit_residue_0H.py usr/lib/python3.13/dist-packages/mmtbx/refinement/real_space/tst_fit_residue_1.py usr/lib/python3.13/dist-packages/mmtbx/refinement/real_space/tst_fit_residue_1H.py usr/lib/python3.13/dist-packages/mmtbx/refinement/real_space/tst_fit_residue_2.py usr/lib/python3.13/dist-packages/mmtbx/refinement/real_space/tst_fit_residue_3.py usr/lib/python3.13/dist-packages/mmtbx/refinement/real_space/tst_fit_residue_4.py usr/lib/python3.13/dist-packages/mmtbx/refinement/real_space/tst_fit_residue_5.py usr/lib/python3.13/dist-packages/mmtbx/refinement/real_space/tst_fit_residue_6.py usr/lib/python3.13/dist-packages/mmtbx/refinement/real_space/tst_fit_residue_7.py usr/lib/python3.13/dist-packages/mmtbx/refinement/real_space/tst_fit_residue_full_sampling.py usr/lib/python3.13/dist-packages/mmtbx/refinement/real_space/tst_fit_residues_1.py usr/lib/python3.13/dist-packages/mmtbx/refinement/real_space/tst_fit_residues_1H.py usr/lib/python3.13/dist-packages/mmtbx/refinement/real_space/tst_fit_residues_2.py usr/lib/python3.13/dist-packages/mmtbx/refinement/real_space/tst_fit_residues_3.py usr/lib/python3.13/dist-packages/mmtbx/refinement/real_space/tst_fit_residues_4.py usr/lib/python3.13/dist-packages/mmtbx/refinement/real_space/tst_fit_residues_5.py usr/lib/python3.13/dist-packages/mmtbx/refinement/real_space/tst_fit_residues_6.py usr/lib/python3.13/dist-packages/mmtbx/refinement/real_space/tst_fit_residues_selection.py usr/lib/python3.13/dist-packages/mmtbx/refinement/real_space/tst_fit_water.py usr/lib/python3.13/dist-packages/mmtbx/refinement/real_space/tst_individual_sites_1.py usr/lib/python3.13/dist-packages/mmtbx/refinement/real_space/tst_individual_sites_2.py usr/lib/python3.13/dist-packages/mmtbx/refinement/real_space/tst_individual_sites_3.py usr/lib/python3.13/dist-packages/mmtbx/refinement/real_space/tst_monitor.py usr/lib/python3.13/dist-packages/mmtbx/refinement/real_space/tst_rigid_body.py usr/lib/python3.13/dist-packages/mmtbx/refinement/real_space/tst_weight.py usr/lib/python3.13/dist-packages/mmtbx/refinement/real_space/utils.py usr/lib/python3.13/dist-packages/mmtbx/refinement/real_space/weight.py usr/lib/python3.13/dist-packages/mmtbx/regression/ usr/lib/python3.13/dist-packages/mmtbx/regression/__init__.py usr/lib/python3.13/dist-packages/mmtbx/regression/make_fake_anomalous_data.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_add_arrows_on_plot.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_add_h_to_water.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_adp_restraints.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_alignment.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_altloc_chain_break.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_altloc_remediate.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_angle.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_anomalous_substructure.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_apply_cif_restraints.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_arginine_geometry.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_cc_star.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_chain_comparison.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_chain_comparison_cif.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_cif_as_mtz_wavelengths.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_cis_trans_peptide_link.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_clashes.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_command_line_input.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_domains_from_pae.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_domains_from_pae_cif.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_dynamics_cli.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_examples.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_find_ncs.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_find_ss_structure.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_find_ss_structure_cif.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_flipping_his.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_fmodel.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_fmodel_2.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_fmodel_and_dm.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_fmodel_fd.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_fmodel_misc.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_fmodel_no_cryst1.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_geo_min_restraints_phil.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_geometry_minimization.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_helix_sheet_recs_as_pdb_files.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_holton_geometry_validation.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_isomorphous_difference_misc.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_ligand_ncs.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_loop_closure.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_lrv.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_map_model_cc.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_map_type_parser.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_maps_misc.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_metal_link_1.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_minimize_chain.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_ml_estimate.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_mmtbx_refinement_wrappers.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_mmtbx_refinement_wrappers_1.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_mmtbx_refinement_wrappers_2.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_model_map.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_model_vs_map.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_model_vs_sequence.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_models_to_from_chains.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_msa.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_mtz2map.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_multi_residue_class.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_origin_ids.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_pdbtools.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_polder.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_polder_1.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_polder_2.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_polder_3.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_polder_4.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_polder_box.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_polder_ccs.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_probe.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_process_predicted_model.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_process_predicted_model_cif.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_prune_model.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_psi_phi_extraction.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_rank_scale_map.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_rdkit_utils_fragmentation.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_real_space_correlation.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_reduce.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_reduce_cryoem_resolution.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_reduce_timeout.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_refine_anomalous_substructure.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_regularize_from_pdb.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_regularize_from_pdb_cif.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_ribbons.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_rigid_bond_test.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_ringer.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_sampled_model_density.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_scattering_table.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_scattering_type_registry.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_schrodinger_interface.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_sequence_validation.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_sort_hetatms.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_special_term_at_end.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_statistics_output.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_superpose.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_table_one.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_utils.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_validate_ligands.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_validate_ligands_2.py usr/lib/python3.13/dist-packages/mmtbx/regression/tst_validation_summary.py usr/lib/python3.13/dist-packages/mmtbx/regression/model/ usr/lib/python3.13/dist-packages/mmtbx/regression/model/__init__.py usr/lib/python3.13/dist-packages/mmtbx/regression/model/tst_model.py usr/lib/python3.13/dist-packages/mmtbx/regression/model/tst_model_2.py usr/lib/python3.13/dist-packages/mmtbx/regression/model/tst_model_biomt_mtrix.py usr/lib/python3.13/dist-packages/mmtbx/regression/model/tst_model_biomt_mtrix_2.py usr/lib/python3.13/dist-packages/mmtbx/regression/model/tst_model_cart_ref_restraints.py usr/lib/python3.13/dist-packages/mmtbx/regression/model/tst_model_dedeuterate.py usr/lib/python3.13/dist-packages/mmtbx/regression/model/tst_model_get_vdw_radii.py usr/lib/python3.13/dist-packages/mmtbx/regression/model/tst_model_merge.py usr/lib/python3.13/dist-packages/mmtbx/regression/model/tst_model_mtrix.py usr/lib/python3.13/dist-packages/mmtbx/regression/model/tst_model_ncs.py usr/lib/python3.13/dist-packages/mmtbx/regression/model/tst_model_neutralize_scatterers.py usr/lib/python3.13/dist-packages/mmtbx/regression/model/tst_model_pairs_within.py usr/lib/python3.13/dist-packages/mmtbx/regression/model/tst_model_ramachandran.py usr/lib/python3.13/dist-packages/mmtbx/regression/model/tst_model_remove_alternative_conformations.py usr/lib/python3.13/dist-packages/mmtbx/regression/model/tst_model_set_hydrogen_bond_length.py usr/lib/python3.13/dist-packages/mmtbx/regression/model/tst_model_symmetry.py usr/lib/python3.13/dist-packages/mmtbx/regression/model/tst_model_tors_ref_restraints.py usr/lib/python3.13/dist-packages/mmtbx/regression/model/tst_model_utils_merge_models.py usr/lib/python3.13/dist-packages/mmtbx/regression/model/tst_restrain_selection_to_self_or_neighbors.py usr/lib/python3.13/dist-packages/mmtbx/regression/ncs/ usr/lib/python3.13/dist-packages/mmtbx/regression/ncs/__init__.py usr/lib/python3.13/dist-packages/mmtbx/regression/ncs/tst_geometry_minimization_ncs_constraints.py usr/lib/python3.13/dist-packages/mmtbx/regression/ncs/tst_minimization_ncs_constraints.py usr/lib/python3.13/dist-packages/mmtbx/regression/ncs/tst_minimization_ncs_constraints2.py usr/lib/python3.13/dist-packages/mmtbx/regression/ncs/tst_minimization_ncs_constraints3.py usr/lib/python3.13/dist-packages/mmtbx/regression/ncs/tst_minimization_ncs_constraints_real_space.py usr/lib/python3.13/dist-packages/mmtbx/regression/ncs/tst_ncs_restraints_group_list.py usr/lib/python3.13/dist-packages/mmtbx/regression/ncs/tst_ncs_search.py usr/lib/python3.13/dist-packages/mmtbx/regression/ncs/tst_ncs_search_flips.py usr/lib/python3.13/dist-packages/mmtbx/regression/ncs/tst_ncs_utils.py usr/lib/python3.13/dist-packages/mmtbx/regression/ncs/tst_restraints.py usr/lib/python3.13/dist-packages/mmtbx/regression/tls/ usr/lib/python3.13/dist-packages/mmtbx/regression/tls/__init__.py usr/lib/python3.13/dist-packages/mmtbx/regression/tls/tst_formula_t_S_10_vs_11_2igd.py usr/lib/python3.13/dist-packages/mmtbx/regression/tls/tst_formula_t_S_10_vs_11_4muy.py usr/lib/python3.13/dist-packages/mmtbx/regression/tls/tst_get_t_scheme.py usr/lib/python3.13/dist-packages/mmtbx/regression/tls/tst_tls.py usr/lib/python3.13/dist-packages/mmtbx/regression/tls/tst_tls_analysis.py usr/lib/python3.13/dist-packages/mmtbx/regression/tls/tst_tls_as_xyz.py usr/lib/python3.13/dist-packages/mmtbx/regression/tls/tst_tls_optimise_amplitudes.py usr/lib/python3.13/dist-packages/mmtbx/regression/tls/tst_tls_refinement_fft.py usr/lib/python3.13/dist-packages/mmtbx/regression/tls/tst_tls_utils.py usr/lib/python3.13/dist-packages/mmtbx/regression/tls/tst_u_tls_vs_u_ens_00.py usr/lib/python3.13/dist-packages/mmtbx/regression/tls/tst_u_tls_vs_u_ens_01.py usr/lib/python3.13/dist-packages/mmtbx/regression/tls/tst_u_tls_vs_u_ens_02.py usr/lib/python3.13/dist-packages/mmtbx/regression/tls/tst_u_tls_vs_u_ens_03.py usr/lib/python3.13/dist-packages/mmtbx/regression/tls/tst_u_tls_vs_u_ens_04.py usr/lib/python3.13/dist-packages/mmtbx/ringer/ usr/lib/python3.13/dist-packages/mmtbx/ringer/__init__.py usr/lib/python3.13/dist-packages/mmtbx/ringer/em_rolling.py usr/lib/python3.13/dist-packages/mmtbx/ringer/em_rscc.py usr/lib/python3.13/dist-packages/mmtbx/ringer/em_scoring.py usr/lib/python3.13/dist-packages/mmtbx/ringer/emringer.py usr/lib/python3.13/dist-packages/mmtbx/ringer/tst_em_rscc.py usr/lib/python3.13/dist-packages/mmtbx/ringer/tst_emringer.py usr/lib/python3.13/dist-packages/mmtbx/rotamer/ usr/lib/python3.13/dist-packages/mmtbx/rotamer/__init__.py usr/lib/python3.13/dist-packages/mmtbx/rotamer/graphics.py usr/lib/python3.13/dist-packages/mmtbx/rotamer/n_dim_table.py usr/lib/python3.13/dist-packages/mmtbx/rotamer/nqh.py usr/lib/python3.13/dist-packages/mmtbx/rotamer/ramachandran_eval.py usr/lib/python3.13/dist-packages/mmtbx/rotamer/ramachandran_eval_deprecated.py usr/lib/python3.13/dist-packages/mmtbx/rotamer/rotamer_eval.py usr/lib/python3.13/dist-packages/mmtbx/rotamer/sidechain_angles.py usr/lib/python3.13/dist-packages/mmtbx/rotamer/tst_geostd_vs_sidechain_angles_props.py usr/lib/python3.13/dist-packages/mmtbx/rotamer/tst_rotamer_eval.py usr/lib/python3.13/dist-packages/mmtbx/rsr/ usr/lib/python3.13/dist-packages/mmtbx/rsr/__init__.py usr/lib/python3.13/dist-packages/mmtbx/rsr/tst.py usr/lib/python3.13/dist-packages/mmtbx/scaling/ usr/lib/python3.13/dist-packages/mmtbx/scaling/__init__.py usr/lib/python3.13/dist-packages/mmtbx/scaling/absence_likelihood.py usr/lib/python3.13/dist-packages/mmtbx/scaling/absences.py usr/lib/python3.13/dist-packages/mmtbx/scaling/absolute_scaling.py usr/lib/python3.13/dist-packages/mmtbx/scaling/basic_analyses.py usr/lib/python3.13/dist-packages/mmtbx/scaling/bayesian_estimator.py usr/lib/python3.13/dist-packages/mmtbx/scaling/data_statistics.py usr/lib/python3.13/dist-packages/mmtbx/scaling/fa_estimation.py usr/lib/python3.13/dist-packages/mmtbx/scaling/make_param.py usr/lib/python3.13/dist-packages/mmtbx/scaling/massage_twin_detwin_data.py usr/lib/python3.13/dist-packages/mmtbx/scaling/matthews.py usr/lib/python3.13/dist-packages/mmtbx/scaling/mean_f_rms_f.py usr/lib/python3.13/dist-packages/mmtbx/scaling/outlier_plots.py usr/lib/python3.13/dist-packages/mmtbx/scaling/outlier_rejection.py usr/lib/python3.13/dist-packages/mmtbx/scaling/pair_analyses.py usr/lib/python3.13/dist-packages/mmtbx/scaling/plan_sad_experiment.py usr/lib/python3.13/dist-packages/mmtbx/scaling/pre_scale.py usr/lib/python3.13/dist-packages/mmtbx/scaling/random_omit.py usr/lib/python3.13/dist-packages/mmtbx/scaling/relative_scaling.py usr/lib/python3.13/dist-packages/mmtbx/scaling/relative_wilson.py usr/lib/python3.13/dist-packages/mmtbx/scaling/remove_outliers.py usr/lib/python3.13/dist-packages/mmtbx/scaling/sigmaa_estimation.py usr/lib/python3.13/dist-packages/mmtbx/scaling/ta_alpha_beta_calc.py usr/lib/python3.13/dist-packages/mmtbx/scaling/thorough_outlier_test.py usr/lib/python3.13/dist-packages/mmtbx/scaling/tst_absences.py usr/lib/python3.13/dist-packages/mmtbx/scaling/tst_bayesian_estimator.py usr/lib/python3.13/dist-packages/mmtbx/scaling/tst_massage_data.py usr/lib/python3.13/dist-packages/mmtbx/scaling/tst_mean_f_rms_f.py usr/lib/python3.13/dist-packages/mmtbx/scaling/tst_outlier.py usr/lib/python3.13/dist-packages/mmtbx/scaling/tst_plan_sad_experiment.py usr/lib/python3.13/dist-packages/mmtbx/scaling/tst_scaling.py usr/lib/python3.13/dist-packages/mmtbx/scaling/tst_sigmaa.py usr/lib/python3.13/dist-packages/mmtbx/scaling/tst_xtriage.py usr/lib/python3.13/dist-packages/mmtbx/scaling/tst_xtriage_twin_analyses.py usr/lib/python3.13/dist-packages/mmtbx/scaling/twin_analyses.py usr/lib/python3.13/dist-packages/mmtbx/scaling/twmad_scale.py usr/lib/python3.13/dist-packages/mmtbx/scaling/xtriage.py usr/lib/python3.13/dist-packages/mmtbx/secondary_structure/ usr/lib/python3.13/dist-packages/mmtbx/secondary_structure/__init__.py usr/lib/python3.13/dist-packages/mmtbx/secondary_structure/find_ss_from_ca.py usr/lib/python3.13/dist-packages/mmtbx/secondary_structure/nucleic_acids.py usr/lib/python3.13/dist-packages/mmtbx/secondary_structure/proteins.py usr/lib/python3.13/dist-packages/mmtbx/secondary_structure/regularize_from_pdb.py usr/lib/python3.13/dist-packages/mmtbx/secondary_structure/secondary_structure_params.py usr/lib/python3.13/dist-packages/mmtbx/secondary_structure/ss_validation.py usr/lib/python3.13/dist-packages/mmtbx/secondary_structure/tst.py usr/lib/python3.13/dist-packages/mmtbx/secondary_structure/tst_insertion_codes.py usr/lib/python3.13/dist-packages/mmtbx/secondary_structure/tst_segid.py usr/lib/python3.13/dist-packages/mmtbx/secondary_structure/utils.py usr/lib/python3.13/dist-packages/mmtbx/secondary_structure/build/ usr/lib/python3.13/dist-packages/mmtbx/secondary_structure/build/__init__.py usr/lib/python3.13/dist-packages/mmtbx/secondary_structure/build/ss_idealization.py usr/lib/python3.13/dist-packages/mmtbx/secondary_structure/build/tst_1.py usr/lib/python3.13/dist-packages/mmtbx/secondary_structure/build/tst_2.py usr/lib/python3.13/dist-packages/mmtbx/secondary_structure/build/tst_3.py usr/lib/python3.13/dist-packages/mmtbx/secondary_structure/build/tst_io.py usr/lib/python3.13/dist-packages/mmtbx/secondary_structure/build/tst_ss_id_ncs.py usr/lib/python3.13/dist-packages/mmtbx/sisa/ usr/lib/python3.13/dist-packages/mmtbx/sisa/__init__.py usr/lib/python3.13/dist-packages/mmtbx/sisa/optimize/ usr/lib/python3.13/dist-packages/mmtbx/sisa/optimize/__init__.py usr/lib/python3.13/dist-packages/mmtbx/sisa/optimize/mod_ga.py usr/lib/python3.13/dist-packages/mmtbx/sisa/optimize/mod_input.py usr/lib/python3.13/dist-packages/mmtbx/sisa/optimize/mod_masks.py usr/lib/python3.13/dist-packages/mmtbx/sisa/optimize/mod_mtz.py usr/lib/python3.13/dist-packages/mmtbx/sisa/optimize/mod_optimize.py usr/lib/python3.13/dist-packages/mmtbx/sisa/optimize/mod_util.py usr/lib/python3.13/dist-packages/mmtbx/solvent/ usr/lib/python3.13/dist-packages/mmtbx/solvent/__init__.py usr/lib/python3.13/dist-packages/mmtbx/solvent/ensemble_ordered_solvent.py usr/lib/python3.13/dist-packages/mmtbx/solvent/map_to_water.py usr/lib/python3.13/dist-packages/mmtbx/solvent/ordered_solvent.py usr/lib/python3.13/dist-packages/mmtbx/suitename/ usr/lib/python3.13/dist-packages/mmtbx/suitename/__init__.py usr/lib/python3.13/dist-packages/mmtbx/suitename/diangle.py usr/lib/python3.13/dist-packages/mmtbx/suitename/dualparse.py usr/lib/python3.13/dist-packages/mmtbx/suitename/mainchain.py usr/lib/python3.13/dist-packages/mmtbx/suitename/suitealyze.py usr/lib/python3.13/dist-packages/mmtbx/suitename/suitename.py usr/lib/python3.13/dist-packages/mmtbx/suitename/suitenamedefs.py usr/lib/python3.13/dist-packages/mmtbx/suitename/suiteninit.py usr/lib/python3.13/dist-packages/mmtbx/suitename/suiteninput.py usr/lib/python3.13/dist-packages/mmtbx/suitename/suitenout.py usr/lib/python3.13/dist-packages/mmtbx/suitename/suites.py usr/lib/python3.13/dist-packages/mmtbx/suitename/transdent.py usr/lib/python3.13/dist-packages/mmtbx/tls/ usr/lib/python3.13/dist-packages/mmtbx/tls/__init__.py usr/lib/python3.13/dist-packages/mmtbx/tls/analysis.py usr/lib/python3.13/dist-packages/mmtbx/tls/command_line.py usr/lib/python3.13/dist-packages/mmtbx/tls/decompose.py usr/lib/python3.13/dist-packages/mmtbx/tls/ladp.py usr/lib/python3.13/dist-packages/mmtbx/tls/optimise_amplitudes.py usr/lib/python3.13/dist-packages/mmtbx/tls/perm10.py usr/lib/python3.13/dist-packages/mmtbx/tls/perm11.py usr/lib/python3.13/dist-packages/mmtbx/tls/perm12.py usr/lib/python3.13/dist-packages/mmtbx/tls/perm13.py usr/lib/python3.13/dist-packages/mmtbx/tls/perm14.py usr/lib/python3.13/dist-packages/mmtbx/tls/perm15.py usr/lib/python3.13/dist-packages/mmtbx/tls/tls_as_xyz.py usr/lib/python3.13/dist-packages/mmtbx/tls/tools.py usr/lib/python3.13/dist-packages/mmtbx/tls/utils.py usr/lib/python3.13/dist-packages/mmtbx/twinning/ usr/lib/python3.13/dist-packages/mmtbx/twinning/__init__.py usr/lib/python3.13/dist-packages/mmtbx/twinning/probabalistic_detwinning.py usr/lib/python3.13/dist-packages/mmtbx/twinning/twin_f_model.py usr/lib/python3.13/dist-packages/mmtbx/utils/ usr/lib/python3.13/dist-packages/mmtbx/utils/__init__.py usr/lib/python3.13/dist-packages/mmtbx/utils/fab_elbow_angle.py usr/lib/python3.13/dist-packages/mmtbx/utils/grid2d.py usr/lib/python3.13/dist-packages/mmtbx/utils/ntc.py usr/lib/python3.13/dist-packages/mmtbx/utils/rotatable_bonds.py usr/lib/python3.13/dist-packages/mmtbx/utils/tst_switch_rotamers.py usr/lib/python3.13/dist-packages/mmtbx/validation/ usr/lib/python3.13/dist-packages/mmtbx/validation/__init__.py usr/lib/python3.13/dist-packages/mmtbx/validation/analyze_peptides.py usr/lib/python3.13/dist-packages/mmtbx/validation/barbed_wire_analysis.py usr/lib/python3.13/dist-packages/mmtbx/validation/cablam.py usr/lib/python3.13/dist-packages/mmtbx/validation/cbd_utils.py usr/lib/python3.13/dist-packages/mmtbx/validation/cbetadev.py usr/lib/python3.13/dist-packages/mmtbx/validation/chain_comparison.py usr/lib/python3.13/dist-packages/mmtbx/validation/clashscore.py usr/lib/python3.13/dist-packages/mmtbx/validation/clashscore2.py usr/lib/python3.13/dist-packages/mmtbx/validation/comparama.py usr/lib/python3.13/dist-packages/mmtbx/validation/comprehensive_residue.py usr/lib/python3.13/dist-packages/mmtbx/validation/convert_lists.py usr/lib/python3.13/dist-packages/mmtbx/validation/datasets.py usr/lib/python3.13/dist-packages/mmtbx/validation/ensembles.py usr/lib/python3.13/dist-packages/mmtbx/validation/experimental.py usr/lib/python3.13/dist-packages/mmtbx/validation/fav_lists.py usr/lib/python3.13/dist-packages/mmtbx/validation/graphics.py usr/lib/python3.13/dist-packages/mmtbx/validation/holton_geometry_validation.py usr/lib/python3.13/dist-packages/mmtbx/validation/ligands.py usr/lib/python3.13/dist-packages/mmtbx/validation/mean_devs_PRO_phi_psi.py usr/lib/python3.13/dist-packages/mmtbx/validation/mean_devs_VAL_THR_ILE_phi_psi.py usr/lib/python3.13/dist-packages/mmtbx/validation/mean_devs_others_phi_psi.py usr/lib/python3.13/dist-packages/mmtbx/validation/model_properties.py usr/lib/python3.13/dist-packages/mmtbx/validation/mp_validate_bonds.py usr/lib/python3.13/dist-packages/mmtbx/validation/omegalyze.py usr/lib/python3.13/dist-packages/mmtbx/validation/phi_psi_2_data.py usr/lib/python3.13/dist-packages/mmtbx/validation/rama_z.py usr/lib/python3.13/dist-packages/mmtbx/validation/ramalyze.py usr/lib/python3.13/dist-packages/mmtbx/validation/restraints.py usr/lib/python3.13/dist-packages/mmtbx/validation/rna_validate.py usr/lib/python3.13/dist-packages/mmtbx/validation/rotalyze.py usr/lib/python3.13/dist-packages/mmtbx/validation/sequence.py usr/lib/python3.13/dist-packages/mmtbx/validation/undowser.py usr/lib/python3.13/dist-packages/mmtbx/validation/undowser2.py usr/lib/python3.13/dist-packages/mmtbx/validation/utils.py usr/lib/python3.13/dist-packages/mmtbx/validation/validate_ligands.py usr/lib/python3.13/dist-packages/mmtbx/validation/waters.py usr/lib/python3.13/dist-packages/mmtbx/validation/molprobity/ usr/lib/python3.13/dist-packages/mmtbx/validation/molprobity/__init__.py usr/lib/python3.13/dist-packages/mmtbx/validation/molprobity/kinemage_templates.py usr/lib/python3.13/dist-packages/mmtbx/validation/molprobity/mp_geo.py usr/lib/python3.13/dist-packages/mmtbx/validation/molprobity/percentile_clashscore.py usr/lib/python3.13/dist-packages/mmtbx/validation/molprobity/percentile_mpscore.py usr/lib/python3.13/dist-packages/mmtbx/validation/molprobity/probescore_ligand.py usr/lib/python3.13/dist-packages/mmtbx/validation/molprobity/table_from_json.py usr/lib/python3.13/dist-packages/mmtbx/validation/ramachandran/ usr/lib/python3.13/dist-packages/mmtbx/validation/ramachandran/__init__.py usr/lib/python3.13/dist-packages/mmtbx/validation/ramachandran/convert_from_text.py usr/lib/python3.13/dist-packages/mmtbx/validation/regression/ usr/lib/python3.13/dist-packages/mmtbx/validation/regression/__init__.py usr/lib/python3.13/dist-packages/mmtbx/validation/regression/run_restraints.py usr/lib/python3.13/dist-packages/mmtbx/validation/regression/tst_cablam.py usr/lib/python3.13/dist-packages/mmtbx/validation/regression/tst_cablam_2.py usr/lib/python3.13/dist-packages/mmtbx/validation/regression/tst_cbetadev.py usr/lib/python3.13/dist-packages/mmtbx/validation/regression/tst_cbetadev_02.py usr/lib/python3.13/dist-packages/mmtbx/validation/regression/tst_chiral_validation.py usr/lib/python3.13/dist-packages/mmtbx/validation/regression/tst_clashscore.py usr/lib/python3.13/dist-packages/mmtbx/validation/regression/tst_clashscore_2.py usr/lib/python3.13/dist-packages/mmtbx/validation/regression/tst_do_flips_clashscore.py usr/lib/python3.13/dist-packages/mmtbx/validation/regression/tst_experimental.py usr/lib/python3.13/dist-packages/mmtbx/validation/regression/tst_find_region_max_value.py usr/lib/python3.13/dist-packages/mmtbx/validation/regression/tst_hydrogen_addition_clashscore.py usr/lib/python3.13/dist-packages/mmtbx/validation/regression/tst_keep_hydrogens.py usr/lib/python3.13/dist-packages/mmtbx/validation/regression/tst_model_properties.py usr/lib/python3.13/dist-packages/mmtbx/validation/regression/tst_molprobity_1.py usr/lib/python3.13/dist-packages/mmtbx/validation/regression/tst_molprobity_2.py usr/lib/python3.13/dist-packages/mmtbx/validation/regression/tst_molprobity_3.py usr/lib/python3.13/dist-packages/mmtbx/validation/regression/tst_molprobity_4.py usr/lib/python3.13/dist-packages/mmtbx/validation/regression/tst_molprobity_5.py usr/lib/python3.13/dist-packages/mmtbx/validation/regression/tst_molprobity_arguments.py usr/lib/python3.13/dist-packages/mmtbx/validation/regression/tst_mp_geo.py usr/lib/python3.13/dist-packages/mmtbx/validation/regression/tst_mp_geo_chiral_volume_cases.py usr/lib/python3.13/dist-packages/mmtbx/validation/regression/tst_mp_geo_endtoend.py usr/lib/python3.13/dist-packages/mmtbx/validation/regression/tst_mp_validate_bonds.py usr/lib/python3.13/dist-packages/mmtbx/validation/regression/tst_omegalyze.py usr/lib/python3.13/dist-packages/mmtbx/validation/regression/tst_rama_z_01.py usr/lib/python3.13/dist-packages/mmtbx/validation/regression/tst_rama_z_02.py usr/lib/python3.13/dist-packages/mmtbx/validation/regression/tst_ramalyze.py usr/lib/python3.13/dist-packages/mmtbx/validation/regression/tst_ramalyze2.py usr/lib/python3.13/dist-packages/mmtbx/validation/regression/tst_ramalyze_rare.py usr/lib/python3.13/dist-packages/mmtbx/validation/regression/tst_restraints.py usr/lib/python3.13/dist-packages/mmtbx/validation/regression/tst_rna_validate.py usr/lib/python3.13/dist-packages/mmtbx/validation/regression/tst_rotalyze.py usr/lib/python3.13/dist-packages/mmtbx/validation/regression/tst_suitename.py usr/lib/python3.13/dist-packages/mmtbx/validation/regression/tst_symmetry_SS.py usr/lib/python3.13/dist-packages/mmtbx/validation/regression/tst_undowser.py usr/lib/python3.13/dist-packages/mmtbx/validation/regression/tst_undowser2.py usr/lib/python3.13/dist-packages/mmtbx/validation/regression/tst_waters.py usr/lib/python3.13/dist-packages/mmtbx/wwpdb/ usr/lib/python3.13/dist-packages/mmtbx/wwpdb/__init__.py usr/lib/python3.13/dist-packages/mmtbx/wwpdb/rcsb_entry_request.py usr/lib/python3.13/dist-packages/mmtbx/wwpdb/rcsb_web_services.py usr/lib/python3.13/dist-packages/mmtbx/wwpdb/tst_rcsb_entry_request.py usr/lib/python3.13/dist-packages/mmtbx/wwpdb/tst_rcsb_web_services.py usr/lib/python3.13/dist-packages/omptbx/ usr/lib/python3.13/dist-packages/omptbx/__init__.py usr/lib/python3.13/dist-packages/omptbx/tst.py usr/lib/python3.13/dist-packages/qttbx/ usr/lib/python3.13/dist-packages/qttbx/__init__.py usr/lib/python3.13/dist-packages/qttbx/phil.py usr/lib/python3.13/dist-packages/qttbx/viewers/ usr/lib/python3.13/dist-packages/qttbx/viewers/__init__.py usr/lib/python3.13/dist-packages/qttbx/viewers/chimerax.py usr/lib/python3.13/dist-packages/rstbx/ usr/lib/python3.13/dist-packages/rstbx/__init__.py usr/lib/python3.13/dist-packages/rstbx/run_tests.py usr/lib/python3.13/dist-packages/rstbx/utils.py usr/lib/python3.13/dist-packages/rstbx/apps/ usr/lib/python3.13/dist-packages/rstbx/apps/__init__.py usr/lib/python3.13/dist-packages/rstbx/apps/dual_resolution_helpers.py usr/lib/python3.13/dist-packages/rstbx/apps/slip_helpers.py usr/lib/python3.13/dist-packages/rstbx/apps/spot_markup.py usr/lib/python3.13/dist-packages/rstbx/apps/stills/ usr/lib/python3.13/dist-packages/rstbx/apps/stills/__init__.py usr/lib/python3.13/dist-packages/rstbx/apps/stills/deltapsi_refinement_preceding_integration.py usr/lib/python3.13/dist-packages/rstbx/apps/stills/dials_refinement_preceding_integration.py usr/lib/python3.13/dist-packages/rstbx/apps/stills/simple_integration.py usr/lib/python3.13/dist-packages/rstbx/apps/stills/stills_integration.py usr/lib/python3.13/dist-packages/rstbx/apps/stills/util.py usr/lib/python3.13/dist-packages/rstbx/array_family/ usr/lib/python3.13/dist-packages/rstbx/array_family/__init__.py usr/lib/python3.13/dist-packages/rstbx/array_family/flex.py usr/lib/python3.13/dist-packages/rstbx/bandpass/ usr/lib/python3.13/dist-packages/rstbx/bandpass/__init__.py usr/lib/python3.13/dist-packages/rstbx/bandpass/simulated_annealing.py usr/lib/python3.13/dist-packages/rstbx/bpcx/ usr/lib/python3.13/dist-packages/rstbx/bpcx/__init__.py usr/lib/python3.13/dist-packages/rstbx/bpcx/compare_mosflm_xds.py usr/lib/python3.13/dist-packages/rstbx/bpcx/ersatz_misset.py usr/lib/python3.13/dist-packages/rstbx/bpcx/uc1_2.py usr/lib/python3.13/dist-packages/rstbx/bpcx/uc1_2_positions.py usr/lib/python3.13/dist-packages/rstbx/bpcx/uc1_2_positions_idx.py usr/lib/python3.13/dist-packages/rstbx/bpcx/uc1_2_validate.py usr/lib/python3.13/dist-packages/rstbx/bpcx/uc1_2a.py usr/lib/python3.13/dist-packages/rstbx/bpcx/detector_model/ usr/lib/python3.13/dist-packages/rstbx/bpcx/detector_model/__init__.py usr/lib/python3.13/dist-packages/rstbx/bpcx/detector_model/detector.py usr/lib/python3.13/dist-packages/rstbx/bpcx/detector_model/instrument_specifics.py usr/lib/python3.13/dist-packages/rstbx/bpcx/detector_model/tst_detector_model.py usr/lib/python3.13/dist-packages/rstbx/cftbx/ usr/lib/python3.13/dist-packages/rstbx/cftbx/__init__.py usr/lib/python3.13/dist-packages/rstbx/cftbx/coordinate_frame_converter.py usr/lib/python3.13/dist-packages/rstbx/cftbx/coordinate_frame_helpers.py usr/lib/python3.13/dist-packages/rstbx/cftbx/tst_coordinate_frame_converter.py usr/lib/python3.13/dist-packages/rstbx/command_line/ usr/lib/python3.13/dist-packages/rstbx/command_line/__init__.py usr/lib/python3.13/dist-packages/rstbx/command_line/example_viewer.py usr/lib/python3.13/dist-packages/rstbx/command_line/index.py usr/lib/python3.13/dist-packages/rstbx/command_line/simage.create.py usr/lib/python3.13/dist-packages/rstbx/command_line/simage.explore_completeness.py usr/lib/python3.13/dist-packages/rstbx/command_line/simage.solver.py usr/lib/python3.13/dist-packages/rstbx/command_line/simage.wx_display.py usr/lib/python3.13/dist-packages/rstbx/command_line/slip_viewer.py usr/lib/python3.13/dist-packages/rstbx/command_line/viewer.py usr/lib/python3.13/dist-packages/rstbx/detectors/ usr/lib/python3.13/dist-packages/rstbx/detectors/__init__.py usr/lib/python3.13/dist-packages/rstbx/detectors/silicon.py usr/lib/python3.13/dist-packages/rstbx/dials_core/ usr/lib/python3.13/dist-packages/rstbx/dials_core/__init__.py usr/lib/python3.13/dist-packages/rstbx/dials_core/integration_core.py usr/lib/python3.13/dist-packages/rstbx/diffraction/ usr/lib/python3.13/dist-packages/rstbx/diffraction/__init__.py usr/lib/python3.13/dist-packages/rstbx/diffraction/tst_ewald_sphere.py usr/lib/python3.13/dist-packages/rstbx/diffraction/tst_partial_derivatives.py usr/lib/python3.13/dist-packages/rstbx/diffraction/tst_predict.py usr/lib/python3.13/dist-packages/rstbx/diffraction/fastbragg/ usr/lib/python3.13/dist-packages/rstbx/diffraction/fastbragg/__init__.py usr/lib/python3.13/dist-packages/rstbx/diffraction/fastbragg/tst_bragg_minimal.py usr/lib/python3.13/dist-packages/rstbx/diffraction/fastbragg/tst_utils_clustering.py usr/lib/python3.13/dist-packages/rstbx/dps_core/ usr/lib/python3.13/dist-packages/rstbx/dps_core/__init__.py usr/lib/python3.13/dist-packages/rstbx/dps_core/basis_choice.py usr/lib/python3.13/dist-packages/rstbx/dps_core/cell_assessment.py usr/lib/python3.13/dist-packages/rstbx/dps_core/constrainment.py usr/lib/python3.13/dist-packages/rstbx/dps_core/lepage.py usr/lib/python3.13/dist-packages/rstbx/dps_core/sampling.py usr/lib/python3.13/dist-packages/rstbx/dps_core/tst_iotbx_converter.py usr/lib/python3.13/dist-packages/rstbx/dps_core/zuoreduction.py usr/lib/python3.13/dist-packages/rstbx/indexing/ usr/lib/python3.13/dist-packages/rstbx/indexing/__init__.py usr/lib/python3.13/dist-packages/rstbx/indexing/do_index.py usr/lib/python3.13/dist-packages/rstbx/indexing/tst_auto_monoscan.py usr/lib/python3.13/dist-packages/rstbx/indexing/tst_dataset1.py usr/lib/python3.13/dist-packages/rstbx/indexing_api/ usr/lib/python3.13/dist-packages/rstbx/indexing_api/__init__.py usr/lib/python3.13/dist-packages/rstbx/indexing_api/basis_choice.py usr/lib/python3.13/dist-packages/rstbx/indexing_api/force_cell.py usr/lib/python3.13/dist-packages/rstbx/indexing_api/lattice.py usr/lib/python3.13/dist-packages/rstbx/indexing_api/nearest_neighbor.py usr/lib/python3.13/dist-packages/rstbx/indexing_api/outlier_detection.py usr/lib/python3.13/dist-packages/rstbx/indexing_api/outlier_procedure.py usr/lib/python3.13/dist-packages/rstbx/indexing_api/sampling.py usr/lib/python3.13/dist-packages/rstbx/indexing_api/test_dps.py usr/lib/python3.13/dist-packages/rstbx/indexing_api/tools.py usr/lib/python3.13/dist-packages/rstbx/new_horizons/ usr/lib/python3.13/dist-packages/rstbx/new_horizons/__init__.py usr/lib/python3.13/dist-packages/rstbx/new_horizons/index.py usr/lib/python3.13/dist-packages/rstbx/new_horizons/oscillation_shots.py usr/lib/python3.13/dist-packages/rstbx/new_horizons/pixel_spread.py usr/lib/python3.13/dist-packages/rstbx/new_horizons/speckfinder.py usr/lib/python3.13/dist-packages/rstbx/new_horizons/spot_shape.py usr/lib/python3.13/dist-packages/rstbx/new_horizons/stats_index.py usr/lib/python3.13/dist-packages/rstbx/outlier_spots/ usr/lib/python3.13/dist-packages/rstbx/outlier_spots/__init__.py usr/lib/python3.13/dist-packages/rstbx/outlier_spots/fit_distribution.py usr/lib/python3.13/dist-packages/rstbx/phil/ usr/lib/python3.13/dist-packages/rstbx/phil/__init__.py usr/lib/python3.13/dist-packages/rstbx/phil/phil_preferences.py usr/lib/python3.13/dist-packages/rstbx/phil/preferences.py usr/lib/python3.13/dist-packages/rstbx/phil/scope.py usr/lib/python3.13/dist-packages/rstbx/simage/ usr/lib/python3.13/dist-packages/rstbx/simage/__init__.py usr/lib/python3.13/dist-packages/rstbx/simage/create.py usr/lib/python3.13/dist-packages/rstbx/simage/explore_completeness.py usr/lib/python3.13/dist-packages/rstbx/simage/integrate_crude.py usr/lib/python3.13/dist-packages/rstbx/simage/refine_uc_cr.py usr/lib/python3.13/dist-packages/rstbx/simage/run_labelit_index.py usr/lib/python3.13/dist-packages/rstbx/simage/run_spotfinder.py usr/lib/python3.13/dist-packages/rstbx/simage/solver.py usr/lib/python3.13/dist-packages/rstbx/simage/tst.py usr/lib/python3.13/dist-packages/rstbx/simage/wx_display.py usr/lib/python3.13/dist-packages/rstbx/simulation/ usr/lib/python3.13/dist-packages/rstbx/simulation/__init__.py usr/lib/python3.13/dist-packages/rstbx/simulation/constants.py usr/lib/python3.13/dist-packages/rstbx/simulation/sim_pdf.py usr/lib/python3.13/dist-packages/rstbx/simulation/sim_utils.py usr/lib/python3.13/dist-packages/rstbx/simulation/tst_xfel1_simple.py usr/lib/python3.13/dist-packages/rstbx/slip_viewer/ usr/lib/python3.13/dist-packages/rstbx/slip_viewer/__init__.py usr/lib/python3.13/dist-packages/rstbx/slip_viewer/calibration_frame.py usr/lib/python3.13/dist-packages/rstbx/slip_viewer/example_frame_plugin_hidden.py usr/lib/python3.13/dist-packages/rstbx/slip_viewer/frame.py usr/lib/python3.13/dist-packages/rstbx/slip_viewer/pyslip.py usr/lib/python3.13/dist-packages/rstbx/slip_viewer/ring_frame.py usr/lib/python3.13/dist-packages/rstbx/slip_viewer/score_frame.py usr/lib/python3.13/dist-packages/rstbx/slip_viewer/slip_display.py usr/lib/python3.13/dist-packages/rstbx/slip_viewer/slip_viewer_image_factory.py usr/lib/python3.13/dist-packages/rstbx/slip_viewer/tile_generation.py usr/lib/python3.13/dist-packages/rstbx/slip_viewer/uc_frame.py usr/lib/python3.13/dist-packages/rstbx/sublattice_support/ usr/lib/python3.13/dist-packages/rstbx/sublattice_support/__init__.py usr/lib/python3.13/dist-packages/rstbx/sublattice_support/change_basis.py usr/lib/python3.13/dist-packages/rstbx/sublattice_support/tst_sublattice.py usr/lib/python3.13/dist-packages/rstbx/symmetry/ usr/lib/python3.13/dist-packages/rstbx/symmetry/__init__.py usr/lib/python3.13/dist-packages/rstbx/symmetry/sgtbx_adaptor.py usr/lib/python3.13/dist-packages/rstbx/symmetry/subgroup.py usr/lib/python3.13/dist-packages/rstbx/symmetry/constraints/ usr/lib/python3.13/dist-packages/rstbx/symmetry/constraints/__init__.py usr/lib/python3.13/dist-packages/rstbx/symmetry/constraints/g_gradients.py usr/lib/python3.13/dist-packages/rstbx/symmetry/constraints/parameter_reduction.py usr/lib/python3.13/dist-packages/rstbx/viewer/ usr/lib/python3.13/dist-packages/rstbx/viewer/__init__.py usr/lib/python3.13/dist-packages/rstbx/viewer/calibration.py usr/lib/python3.13/dist-packages/rstbx/viewer/calibration_frame.py usr/lib/python3.13/dist-packages/rstbx/viewer/controls.py usr/lib/python3.13/dist-packages/rstbx/viewer/dataset.py usr/lib/python3.13/dist-packages/rstbx/viewer/display.py usr/lib/python3.13/dist-packages/rstbx/viewer/drivers.py usr/lib/python3.13/dist-packages/rstbx/viewer/frame.py usr/lib/python3.13/dist-packages/rstbx/viewer/indexing.py usr/lib/python3.13/dist-packages/rstbx/viewer/integration.py usr/lib/python3.13/dist-packages/rstbx/viewer/pixels3d.py usr/lib/python3.13/dist-packages/rstbx/viewer/processing.py usr/lib/python3.13/dist-packages/rstbx/viewer/results_base.py usr/lib/python3.13/dist-packages/rstbx/viewer/spotfinder_frame.py usr/lib/python3.13/dist-packages/rstbx/viewer/spotfinder_wrap.py usr/lib/python3.13/dist-packages/rstbx/viewer/tst.py usr/lib/python3.13/dist-packages/scitbx/ usr/lib/python3.13/dist-packages/scitbx/__init__.py usr/lib/python3.13/dist-packages/scitbx/cross_entropy.py usr/lib/python3.13/dist-packages/scitbx/cubicle_neighbors.py usr/lib/python3.13/dist-packages/scitbx/differential_evolution.py usr/lib/python3.13/dist-packages/scitbx/direct_search_simulated_annealing.py usr/lib/python3.13/dist-packages/scitbx/fftpack.py usr/lib/python3.13/dist-packages/scitbx/genetic_algorithm_with_mp.py usr/lib/python3.13/dist-packages/scitbx/golden_section_search.py usr/lib/python3.13/dist-packages/scitbx/lbfgsb.py usr/lib/python3.13/dist-packages/scitbx/libtbx_refresh.py usr/lib/python3.13/dist-packages/scitbx/minimizers.py usr/lib/python3.13/dist-packages/scitbx/minpack.py usr/lib/python3.13/dist-packages/scitbx/r3_utils.py usr/lib/python3.13/dist-packages/scitbx/regular_grid_on_unit_sphere.py usr/lib/python3.13/dist-packages/scitbx/restraints.py usr/lib/python3.13/dist-packages/scitbx/run_tests.py usr/lib/python3.13/dist-packages/scitbx/simplex.py usr/lib/python3.13/dist-packages/scitbx/smoothing.py usr/lib/python3.13/dist-packages/scitbx/array_family/ usr/lib/python3.13/dist-packages/scitbx/array_family/__init__.py usr/lib/python3.13/dist-packages/scitbx/array_family/flex.py usr/lib/python3.13/dist-packages/scitbx/array_family/shared.py usr/lib/python3.13/dist-packages/scitbx/array_family/accessors/ usr/lib/python3.13/dist-packages/scitbx/array_family/accessors/__init__.py usr/lib/python3.13/dist-packages/scitbx/array_family/boost_python/ usr/lib/python3.13/dist-packages/scitbx/array_family/boost_python/__init__.py usr/lib/python3.13/dist-packages/scitbx/array_family/boost_python/regression_test.py usr/lib/python3.13/dist-packages/scitbx/array_family/boost_python/tst_cost_of_m_handle_in_af_shared.py usr/lib/python3.13/dist-packages/scitbx/array_family/boost_python/tst_flex.py usr/lib/python3.13/dist-packages/scitbx/array_family/boost_python/tst_flex_argument_passing.py usr/lib/python3.13/dist-packages/scitbx/array_family/boost_python/tst_integer_offsets_vs_pointers.py usr/lib/python3.13/dist-packages/scitbx/array_family/boost_python/tst_numpy_bridge.py usr/lib/python3.13/dist-packages/scitbx/array_family/boost_python/tst_shared.py usr/lib/python3.13/dist-packages/scitbx/array_family/boost_python/tst_smart_selection.py usr/lib/python3.13/dist-packages/scitbx/array_family/detail/ usr/lib/python3.13/dist-packages/scitbx/array_family/detail/__init__.py usr/lib/python3.13/dist-packages/scitbx/boost_python/ usr/lib/python3.13/dist-packages/scitbx/boost_python/__init__.py usr/lib/python3.13/dist-packages/scitbx/command_line/ usr/lib/python3.13/dist-packages/scitbx/command_line/__init__.py usr/lib/python3.13/dist-packages/scitbx/command_line/apply_tapenade_hints.py usr/lib/python3.13/dist-packages/scitbx/command_line/generate_error_h.py usr/lib/python3.13/dist-packages/scitbx/command_line/histogram.py usr/lib/python3.13/dist-packages/scitbx/command_line/show_exp_times.py usr/lib/python3.13/dist-packages/scitbx/command_line/show_sizes.py usr/lib/python3.13/dist-packages/scitbx/command_line/unicode_examples.py usr/lib/python3.13/dist-packages/scitbx/dtmin/ usr/lib/python3.13/dist-packages/scitbx/dtmin/__init__.py usr/lib/python3.13/dist-packages/scitbx/dtmin/auxiliary.py usr/lib/python3.13/dist-packages/scitbx/dtmin/bounds.py usr/lib/python3.13/dist-packages/scitbx/dtmin/compulsory.py usr/lib/python3.13/dist-packages/scitbx/dtmin/min_logging.py usr/lib/python3.13/dist-packages/scitbx/dtmin/minimizer.py usr/lib/python3.13/dist-packages/scitbx/dtmin/optional.py usr/lib/python3.13/dist-packages/scitbx/dtmin/realsymmetricpseudoinverse.py usr/lib/python3.13/dist-packages/scitbx/dtmin/refinebase.py usr/lib/python3.13/dist-packages/scitbx/dtmin/reparams.py usr/lib/python3.13/dist-packages/scitbx/dtmin/twisted_gaussian.py usr/lib/python3.13/dist-packages/scitbx/dtmin/regression/ usr/lib/python3.13/dist-packages/scitbx/dtmin/regression/__init__.py usr/lib/python3.13/dist-packages/scitbx/dtmin/regression/tst_dtmin_basic.py usr/lib/python3.13/dist-packages/scitbx/dtmin/regression/tst_dtmin_booth.py usr/lib/python3.13/dist-packages/scitbx/dtmin/regression/tst_dtmin_twisted.py usr/lib/python3.13/dist-packages/scitbx/error/ usr/lib/python3.13/dist-packages/scitbx/error/__init__.py usr/lib/python3.13/dist-packages/scitbx/error/tst_error.py usr/lib/python3.13/dist-packages/scitbx/examples/ usr/lib/python3.13/dist-packages/scitbx/examples/__init__.py usr/lib/python3.13/dist-packages/scitbx/examples/bootstrap.py usr/lib/python3.13/dist-packages/scitbx/examples/chebyshev_lsq_example.py usr/lib/python3.13/dist-packages/scitbx/examples/flex_array_loops.py usr/lib/python3.13/dist-packages/scitbx/examples/flex_grid.py usr/lib/python3.13/dist-packages/scitbx/examples/functions.py usr/lib/python3.13/dist-packages/scitbx/examples/immoptibox_ports.py usr/lib/python3.13/dist-packages/scitbx/examples/integrating_a_weighted_sinc_function.py usr/lib/python3.13/dist-packages/scitbx/examples/lbfgs_linear_least_squares_fit.py usr/lib/python3.13/dist-packages/scitbx/examples/lbfgs_recipe.py usr/lib/python3.13/dist-packages/scitbx/examples/minimizer_comparisons.py usr/lib/python3.13/dist-packages/scitbx/examples/principal_axes_of_inertia.py usr/lib/python3.13/dist-packages/scitbx/examples/rigid_body_refinement_core.py usr/lib/python3.13/dist-packages/scitbx/examples/bevington/ usr/lib/python3.13/dist-packages/scitbx/examples/bevington/__init__.py usr/lib/python3.13/dist-packages/scitbx/examples/bevington/silver.py usr/lib/python3.13/dist-packages/scitbx/glmtbx/ usr/lib/python3.13/dist-packages/scitbx/glmtbx/__init__.py usr/lib/python3.13/dist-packages/scitbx/glmtbx/boost_python/ usr/lib/python3.13/dist-packages/scitbx/glmtbx/boost_python/__init__.py usr/lib/python3.13/dist-packages/scitbx/glmtbx/tests/ usr/lib/python3.13/dist-packages/scitbx/glmtbx/tests/__init__.py usr/lib/python3.13/dist-packages/scitbx/glmtbx/tests/tst.py usr/lib/python3.13/dist-packages/scitbx/graph/ usr/lib/python3.13/dist-packages/scitbx/graph/__init__.py usr/lib/python3.13/dist-packages/scitbx/graph/rigidity.py usr/lib/python3.13/dist-packages/scitbx/graph/rigidity_matrix_symbolic.py usr/lib/python3.13/dist-packages/scitbx/graph/tardy_tree.py usr/lib/python3.13/dist-packages/scitbx/graph/test_cases_tardy_pdb.py usr/lib/python3.13/dist-packages/scitbx/graph/tst_rigidity.py usr/lib/python3.13/dist-packages/scitbx/graph/tst_tardy_tree.py usr/lib/python3.13/dist-packages/scitbx/graph/tst_tardy_tree_find_paths.py usr/lib/python3.13/dist-packages/scitbx/graph/tst_utils.py usr/lib/python3.13/dist-packages/scitbx/graph/utils.py usr/lib/python3.13/dist-packages/scitbx/graphics_utils/ usr/lib/python3.13/dist-packages/scitbx/graphics_utils/__init__.py usr/lib/python3.13/dist-packages/scitbx/graphics_utils/tst.py usr/lib/python3.13/dist-packages/scitbx/iso_surface/ usr/lib/python3.13/dist-packages/scitbx/iso_surface/__init__.py usr/lib/python3.13/dist-packages/scitbx/iso_surface/tst_iso_surface.py usr/lib/python3.13/dist-packages/scitbx/lbfgs/ usr/lib/python3.13/dist-packages/scitbx/lbfgs/__init__.py usr/lib/python3.13/dist-packages/scitbx/lbfgs/tst_curvatures.py usr/lib/python3.13/dist-packages/scitbx/lbfgs/tst_ext.py usr/lib/python3.13/dist-packages/scitbx/lbfgs/tst_func_free_line_search.py usr/lib/python3.13/dist-packages/scitbx/lbfgs/tst_lbfgs_fem.py usr/lib/python3.13/dist-packages/scitbx/lbfgs/tst_mpi_split_evaluator.py usr/lib/python3.13/dist-packages/scitbx/lbfgs/dev/ usr/lib/python3.13/dist-packages/scitbx/lbfgs/dev/__init__.py usr/lib/python3.13/dist-packages/scitbx/lbfgs/dev/run.py usr/lib/python3.13/dist-packages/scitbx/lbfgs/dev/twisted_gaussian.py usr/lib/python3.13/dist-packages/scitbx/linalg/ usr/lib/python3.13/dist-packages/scitbx/linalg/__init__.py usr/lib/python3.13/dist-packages/scitbx/linalg/eigensystem.py usr/lib/python3.13/dist-packages/scitbx/linalg/ext.py usr/lib/python3.13/dist-packages/scitbx/linalg/householder.py usr/lib/python3.13/dist-packages/scitbx/linalg/svd.py usr/lib/python3.13/dist-packages/scitbx/linalg/boost_python/ usr/lib/python3.13/dist-packages/scitbx/linalg/boost_python/__init__.py usr/lib/python3.13/dist-packages/scitbx/linalg/tests/ usr/lib/python3.13/dist-packages/scitbx/linalg/tests/__init__.py usr/lib/python3.13/dist-packages/scitbx/linalg/tests/tst_cholesky.py usr/lib/python3.13/dist-packages/scitbx/linalg/tests/tst_eigensystem.py usr/lib/python3.13/dist-packages/scitbx/linalg/tests/tst_lapack_dsyev.py usr/lib/python3.13/dist-packages/scitbx/linalg/tests/tst_lapack_svd.py usr/lib/python3.13/dist-packages/scitbx/linalg/tests/tst_matrix.py usr/lib/python3.13/dist-packages/scitbx/linalg/tests/tst_svd.py usr/lib/python3.13/dist-packages/scitbx/line_search/ usr/lib/python3.13/dist-packages/scitbx/line_search/__init__.py usr/lib/python3.13/dist-packages/scitbx/lstbx/ usr/lib/python3.13/dist-packages/scitbx/lstbx/__init__.py usr/lib/python3.13/dist-packages/scitbx/lstbx/normal_eqns.py usr/lib/python3.13/dist-packages/scitbx/lstbx/normal_eqns_solving.py usr/lib/python3.13/dist-packages/scitbx/lstbx/benchmarks/ usr/lib/python3.13/dist-packages/scitbx/lstbx/benchmarks/__init__.py usr/lib/python3.13/dist-packages/scitbx/lstbx/boost_python/ usr/lib/python3.13/dist-packages/scitbx/lstbx/boost_python/__init__.py usr/lib/python3.13/dist-packages/scitbx/lstbx/tests/ usr/lib/python3.13/dist-packages/scitbx/lstbx/tests/__init__.py usr/lib/python3.13/dist-packages/scitbx/lstbx/tests/test_problems.py usr/lib/python3.13/dist-packages/scitbx/lstbx/tests/tst_normal_equations.py usr/lib/python3.13/dist-packages/scitbx/math/ usr/lib/python3.13/dist-packages/scitbx/math/__init__.py usr/lib/python3.13/dist-packages/scitbx/math/besselk.py usr/lib/python3.13/dist-packages/scitbx/math/breakpoint.py usr/lib/python3.13/dist-packages/scitbx/math/chebyshev_lsq_fit.py usr/lib/python3.13/dist-packages/scitbx/math/clustering.py usr/lib/python3.13/dist-packages/scitbx/math/cubic_spline.py usr/lib/python3.13/dist-packages/scitbx/math/curve_fitting.py usr/lib/python3.13/dist-packages/scitbx/math/des_3_100_13.py usr/lib/python3.13/dist-packages/scitbx/math/des_3_240_21.py usr/lib/python3.13/dist-packages/scitbx/math/distributions.py usr/lib/python3.13/dist-packages/scitbx/math/euler_angles.py usr/lib/python3.13/dist-packages/scitbx/math/ext.py usr/lib/python3.13/dist-packages/scitbx/math/farey.py usr/lib/python3.13/dist-packages/scitbx/math/fit_peak.py usr/lib/python3.13/dist-packages/scitbx/math/fit_quadratic_function.py usr/lib/python3.13/dist-packages/scitbx/math/fliege_mayer_400.py usr/lib/python3.13/dist-packages/scitbx/math/fliege_mayer_900.py usr/lib/python3.13/dist-packages/scitbx/math/fliege_mayer_900_ylm.py usr/lib/python3.13/dist-packages/scitbx/math/gaussian.py usr/lib/python3.13/dist-packages/scitbx/math/gaussian_fit.py usr/lib/python3.13/dist-packages/scitbx/math/gumbel.py usr/lib/python3.13/dist-packages/scitbx/math/incremental_SO3_sampling.py usr/lib/python3.13/dist-packages/scitbx/math/lefebvre.py usr/lib/python3.13/dist-packages/scitbx/math/minimum_covering_ellipsoid.py usr/lib/python3.13/dist-packages/scitbx/math/multiple_superposition.py usr/lib/python3.13/dist-packages/scitbx/math/periodogram.py usr/lib/python3.13/dist-packages/scitbx/math/scale_curves.py usr/lib/python3.13/dist-packages/scitbx/math/sieve_of_eratosthenes.py usr/lib/python3.13/dist-packages/scitbx/math/so3_lie_algebra.py usr/lib/python3.13/dist-packages/scitbx/math/spe.py usr/lib/python3.13/dist-packages/scitbx/math/sphere_sphere_intersection.py usr/lib/python3.13/dist-packages/scitbx/math/superpose.py usr/lib/python3.13/dist-packages/scitbx/math/tst_2d_zernike.py usr/lib/python3.13/dist-packages/scitbx/math/tst_bessel_zeros.py usr/lib/python3.13/dist-packages/scitbx/math/tst_multivariate_moments.py usr/lib/python3.13/dist-packages/scitbx/math/tst_so3_lie_algebra.py usr/lib/python3.13/dist-packages/scitbx/math/tst_undirected_graph.py usr/lib/python3.13/dist-packages/scitbx/math/tst_zernike.py usr/lib/python3.13/dist-packages/scitbx/math/tst_zernike_mom.py usr/lib/python3.13/dist-packages/scitbx/math/undirected_graph.py usr/lib/python3.13/dist-packages/scitbx/math/zernike_align_fft.py usr/lib/python3.13/dist-packages/scitbx/math/boost_python/ usr/lib/python3.13/dist-packages/scitbx/math/boost_python/__init__.py usr/lib/python3.13/dist-packages/scitbx/math/dev/ usr/lib/python3.13/dist-packages/scitbx/math/dev/__init__.py usr/lib/python3.13/dist-packages/scitbx/math/erf/ usr/lib/python3.13/dist-packages/scitbx/math/erf/__init__.py usr/lib/python3.13/dist-packages/scitbx/math/tests/ usr/lib/python3.13/dist-packages/scitbx/math/tests/__init__.py usr/lib/python3.13/dist-packages/scitbx/math/tests/tst_angle_derivative.py usr/lib/python3.13/dist-packages/scitbx/math/tests/tst_bessel.py usr/lib/python3.13/dist-packages/scitbx/math/tests/tst_clustering.py usr/lib/python3.13/dist-packages/scitbx/math/tests/tst_cubic_equation.py usr/lib/python3.13/dist-packages/scitbx/math/tests/tst_curve_fitting.py usr/lib/python3.13/dist-packages/scitbx/math/tests/tst_dmatrix.py usr/lib/python3.13/dist-packages/scitbx/math/tests/tst_error_propagation_matrix_inverse.py usr/lib/python3.13/dist-packages/scitbx/math/tests/tst_euler_angles.py usr/lib/python3.13/dist-packages/scitbx/math/tests/tst_exp_functions.py usr/lib/python3.13/dist-packages/scitbx/math/tests/tst_fit_peak.py usr/lib/python3.13/dist-packages/scitbx/math/tests/tst_fit_quadratic_function.py usr/lib/python3.13/dist-packages/scitbx/math/tests/tst_g_function.py usr/lib/python3.13/dist-packages/scitbx/math/tests/tst_gaussian.py usr/lib/python3.13/dist-packages/scitbx/math/tests/tst_gaussian_fit_1d_analytical.py usr/lib/python3.13/dist-packages/scitbx/math/tests/tst_gcd.py usr/lib/python3.13/dist-packages/scitbx/math/tests/tst_halton.py usr/lib/python3.13/dist-packages/scitbx/math/tests/tst_line_search.py usr/lib/python3.13/dist-packages/scitbx/math/tests/tst_math.py usr/lib/python3.13/dist-packages/scitbx/math/tests/tst_minimum_covering_ellipsoid.py usr/lib/python3.13/dist-packages/scitbx/math/tests/tst_orthonormal_basis.py usr/lib/python3.13/dist-packages/scitbx/math/tests/tst_periodogram.py usr/lib/python3.13/dist-packages/scitbx/math/tests/tst_quadrature.py usr/lib/python3.13/dist-packages/scitbx/math/tests/tst_r3_rotation.py usr/lib/python3.13/dist-packages/scitbx/math/tests/tst_resample.py usr/lib/python3.13/dist-packages/scitbx/math/tests/tst_similarity_indices.py usr/lib/python3.13/dist-packages/scitbx/math/tests/tst_superpose.py usr/lib/python3.13/dist-packages/scitbx/math/tests/tst_tetrahedron.py usr/lib/python3.13/dist-packages/scitbx/math/tests/tst_uniform_rotation_matrix.py usr/lib/python3.13/dist-packages/scitbx/math/tests/tst_weighted_correlation.py usr/lib/python3.13/dist-packages/scitbx/matrix/ usr/lib/python3.13/dist-packages/scitbx/matrix/__init__.py usr/lib/python3.13/dist-packages/scitbx/matrix/row_echelon.py usr/lib/python3.13/dist-packages/scitbx/matrix/tests/ usr/lib/python3.13/dist-packages/scitbx/matrix/tests/__init__.py usr/lib/python3.13/dist-packages/scitbx/matrix/tests/tst_householder.py usr/lib/python3.13/dist-packages/scitbx/matrix/tests/tst_row_echelon.py usr/lib/python3.13/dist-packages/scitbx/misc/ usr/lib/python3.13/dist-packages/scitbx/misc/__init__.py usr/lib/python3.13/dist-packages/scitbx/python_utils/ usr/lib/python3.13/dist-packages/scitbx/python_utils/__init__.py usr/lib/python3.13/dist-packages/scitbx/python_utils/command_line.py usr/lib/python3.13/dist-packages/scitbx/python_utils/dicts.py usr/lib/python3.13/dist-packages/scitbx/python_utils/graph_tools.py usr/lib/python3.13/dist-packages/scitbx/python_utils/misc.py usr/lib/python3.13/dist-packages/scitbx/python_utils/random_transform.py usr/lib/python3.13/dist-packages/scitbx/python_utils/robust_statistics.py usr/lib/python3.13/dist-packages/scitbx/python_utils/signal_utils.py usr/lib/python3.13/dist-packages/scitbx/python_utils/tst_graph.py usr/lib/python3.13/dist-packages/scitbx/python_utils/tst_random_transform.py usr/lib/python3.13/dist-packages/scitbx/python_utils/tst_robust.py usr/lib/python3.13/dist-packages/scitbx/random/ usr/lib/python3.13/dist-packages/scitbx/random/__init__.py usr/lib/python3.13/dist-packages/scitbx/random/boost_python/ usr/lib/python3.13/dist-packages/scitbx/random/boost_python/__init__.py usr/lib/python3.13/dist-packages/scitbx/random/tests/ usr/lib/python3.13/dist-packages/scitbx/random/tests/__init__.py usr/lib/python3.13/dist-packages/scitbx/random/tests/tst_random.py usr/lib/python3.13/dist-packages/scitbx/rigid_body/ usr/lib/python3.13/dist-packages/scitbx/rigid_body/__init__.py usr/lib/python3.13/dist-packages/scitbx/rigid_body/tst.py usr/lib/python3.13/dist-packages/scitbx/rigid_body/essence/ usr/lib/python3.13/dist-packages/scitbx/rigid_body/essence/__init__.py usr/lib/python3.13/dist-packages/scitbx/rigid_body/essence/body_lib.py usr/lib/python3.13/dist-packages/scitbx/rigid_body/essence/featherstone.py usr/lib/python3.13/dist-packages/scitbx/rigid_body/essence/joint_lib.py usr/lib/python3.13/dist-packages/scitbx/rigid_body/essence/make_bundles.py usr/lib/python3.13/dist-packages/scitbx/rigid_body/essence/spatial_lib.py usr/lib/python3.13/dist-packages/scitbx/rigid_body/essence/tardy.py usr/lib/python3.13/dist-packages/scitbx/rigid_body/essence/tst_basic.py usr/lib/python3.13/dist-packages/scitbx/rigid_body/essence/tst_energy_plots.py usr/lib/python3.13/dist-packages/scitbx/rigid_body/essence/tst_tardy.py usr/lib/python3.13/dist-packages/scitbx/rigid_body/essence/wx_tardy.py usr/lib/python3.13/dist-packages/scitbx/rigid_body/proto/ usr/lib/python3.13/dist-packages/scitbx/rigid_body/proto/__init__.py usr/lib/python3.13/dist-packages/scitbx/rigid_body/proto/featherstone.py usr/lib/python3.13/dist-packages/scitbx/rigid_body/proto/free_motion_reference_impl.py usr/lib/python3.13/dist-packages/scitbx/rigid_body/proto/joint_lib.py usr/lib/python3.13/dist-packages/scitbx/rigid_body/proto/test_simulation.py usr/lib/python3.13/dist-packages/scitbx/rigid_body/proto/test_utils.py usr/lib/python3.13/dist-packages/scitbx/rigid_body/proto/tst_featherstone.py usr/lib/python3.13/dist-packages/scitbx/rigid_body/proto/tst_free_motion.py usr/lib/python3.13/dist-packages/scitbx/rigid_body/proto/tst_free_motion_hard.py usr/lib/python3.13/dist-packages/scitbx/rigid_body/proto/tst_joint_lib.py usr/lib/python3.13/dist-packages/scitbx/rigid_body/proto/tst_molecules.py usr/lib/python3.13/dist-packages/scitbx/rigid_body/proto/tst_singular.py usr/lib/python3.13/dist-packages/scitbx/rigid_body/proto/tst_spherical_refinement.py usr/lib/python3.13/dist-packages/scitbx/rigid_body/proto/utils.py usr/lib/python3.13/dist-packages/scitbx/rigid_body/proto/wx_free_motion.py usr/lib/python3.13/dist-packages/scitbx/rigid_body/proto/wx_joint_lib.py usr/lib/python3.13/dist-packages/scitbx/rigid_body/proto/wx_molecules.py usr/lib/python3.13/dist-packages/scitbx/serialization/ usr/lib/python3.13/dist-packages/scitbx/serialization/__init__.py usr/lib/python3.13/dist-packages/scitbx/slatec/ usr/lib/python3.13/dist-packages/scitbx/slatec/__init__.py usr/lib/python3.13/dist-packages/scitbx/source_generators/ usr/lib/python3.13/dist-packages/scitbx/source_generators/__init__.py usr/lib/python3.13/dist-packages/scitbx/source_generators/flex_fwd_h.py usr/lib/python3.13/dist-packages/scitbx/source_generators/lbfgs_fem.py usr/lib/python3.13/dist-packages/scitbx/source_generators/utils.py usr/lib/python3.13/dist-packages/scitbx/source_generators/array_family/ usr/lib/python3.13/dist-packages/scitbx/source_generators/array_family/__init__.py usr/lib/python3.13/dist-packages/scitbx/source_generators/array_family/generate_algebras.py usr/lib/python3.13/dist-packages/scitbx/source_generators/array_family/generate_all.py usr/lib/python3.13/dist-packages/scitbx/source_generators/array_family/generate_apply.py usr/lib/python3.13/dist-packages/scitbx/source_generators/array_family/generate_operator_functors.py usr/lib/python3.13/dist-packages/scitbx/source_generators/array_family/generate_operator_traits_builtin.py usr/lib/python3.13/dist-packages/scitbx/source_generators/array_family/generate_reductions.py usr/lib/python3.13/dist-packages/scitbx/source_generators/array_family/generate_std_imports.py usr/lib/python3.13/dist-packages/scitbx/source_generators/array_family/operator_functor_info.py usr/lib/python3.13/dist-packages/scitbx/sparse/ usr/lib/python3.13/dist-packages/scitbx/sparse/__init__.py usr/lib/python3.13/dist-packages/scitbx/sparse/boost_python/ usr/lib/python3.13/dist-packages/scitbx/sparse/boost_python/__init__.py usr/lib/python3.13/dist-packages/scitbx/sparse/tests/ usr/lib/python3.13/dist-packages/scitbx/sparse/tests/__init__.py usr/lib/python3.13/dist-packages/scitbx/sparse/tests/tst_lu_factorization.py usr/lib/python3.13/dist-packages/scitbx/sparse/tests/tst_sparse.py usr/lib/python3.13/dist-packages/scitbx/stdlib/ usr/lib/python3.13/dist-packages/scitbx/stdlib/__init__.py usr/lib/python3.13/dist-packages/scitbx/stl/ usr/lib/python3.13/dist-packages/scitbx/stl/__init__.py usr/lib/python3.13/dist-packages/scitbx/stl/map.py usr/lib/python3.13/dist-packages/scitbx/stl/set.py usr/lib/python3.13/dist-packages/scitbx/stl/tst_map.py usr/lib/python3.13/dist-packages/scitbx/stl/tst_set.py usr/lib/python3.13/dist-packages/scitbx/stl/tst_vector.py usr/lib/python3.13/dist-packages/scitbx/stl/vector.py usr/lib/python3.13/dist-packages/scitbx/suffixtree/ usr/lib/python3.13/dist-packages/scitbx/suffixtree/__init__.py usr/lib/python3.13/dist-packages/scitbx/suffixtree/single.py usr/lib/python3.13/dist-packages/scitbx/suffixtree/boost_python/ usr/lib/python3.13/dist-packages/scitbx/suffixtree/boost_python/__init__.py usr/lib/python3.13/dist-packages/scitbx/suffixtree/test/ usr/lib/python3.13/dist-packages/scitbx/suffixtree/test/__init__.py usr/lib/python3.13/dist-packages/scitbx/suffixtree/test/tst_single.py usr/lib/python3.13/dist-packages/scitbx/tests/ usr/lib/python3.13/dist-packages/scitbx/tests/__init__.py usr/lib/python3.13/dist-packages/scitbx/tests/differential_evolution.py usr/lib/python3.13/dist-packages/scitbx/tests/direct_search_simulated_annealing.py usr/lib/python3.13/dist-packages/scitbx/tests/golden_section_search.py usr/lib/python3.13/dist-packages/scitbx/tests/simplex.py usr/lib/python3.13/dist-packages/scitbx/tests/tst_basic.py usr/lib/python3.13/dist-packages/scitbx/tests/tst_cubicle_neighbors.py usr/lib/python3.13/dist-packages/scitbx/tests/tst_genetic_algorithm_with_mp.py usr/lib/python3.13/dist-packages/scitbx/tests/tst_minimizer_lbfgs_general.py usr/lib/python3.13/dist-packages/scitbx/tests/tst_r3_utils.py usr/lib/python3.13/dist-packages/scitbx/tests/tst_regular_grid_on_unit_sphere.py usr/lib/python3.13/dist-packages/scitbx/tests/tst_smoothing.py usr/lib/python3.13/dist-packages/scitbx/wigner/ usr/lib/python3.13/dist-packages/scitbx/wigner/__init__.py usr/lib/python3.13/dist-packages/scitbx/wigner/tst_wigner3j.py usr/lib/python3.13/dist-packages/serialtbx/ usr/lib/python3.13/dist-packages/serialtbx/__init__.py usr/lib/python3.13/dist-packages/serialtbx/detector/ usr/lib/python3.13/dist-packages/serialtbx/detector/__init__.py usr/lib/python3.13/dist-packages/serialtbx/detector/cspad.py usr/lib/python3.13/dist-packages/serialtbx/detector/jungfrau.py usr/lib/python3.13/dist-packages/serialtbx/detector/rayonix.py usr/lib/python3.13/dist-packages/serialtbx/detector/xtc.py usr/lib/python3.13/dist-packages/serialtbx/detector/legacy_metrology/ usr/lib/python3.13/dist-packages/serialtbx/detector/legacy_metrology/__init__.py usr/lib/python3.13/dist-packages/serialtbx/detector/legacy_metrology/cspad_detector.py usr/lib/python3.13/dist-packages/serialtbx/detector/legacy_metrology/generic_detector.py usr/lib/python3.13/dist-packages/serialtbx/detector/legacy_metrology/metrology.py usr/lib/python3.13/dist-packages/serialtbx/mono_simulation/ usr/lib/python3.13/dist-packages/serialtbx/mono_simulation/__init__.py usr/lib/python3.13/dist-packages/serialtbx/mono_simulation/max_like.py usr/lib/python3.13/dist-packages/serialtbx/mono_simulation/util.py usr/lib/python3.13/dist-packages/serialtbx/util/ usr/lib/python3.13/dist-packages/serialtbx/util/__init__.py usr/lib/python3.13/dist-packages/serialtbx/util/construct_frame.py usr/lib/python3.13/dist-packages/serialtbx/util/energy_scan_notch_finder.py usr/lib/python3.13/dist-packages/serialtbx/util/time.py usr/lib/python3.13/dist-packages/simtbx/ usr/lib/python3.13/dist-packages/simtbx/__init__.py usr/lib/python3.13/dist-packages/simtbx/run_tests.py usr/lib/python3.13/dist-packages/simtbx/diffBragg/ usr/lib/python3.13/dist-packages/simtbx/diffBragg/__init__.py usr/lib/python3.13/dist-packages/simtbx/diffBragg/attr_list.py usr/lib/python3.13/dist-packages/simtbx/diffBragg/device.py usr/lib/python3.13/dist-packages/simtbx/diffBragg/ensemble_refine_launcher.py usr/lib/python3.13/dist-packages/simtbx/diffBragg/hopper_ensemble_utils.py usr/lib/python3.13/dist-packages/simtbx/diffBragg/hopper_io.py usr/lib/python3.13/dist-packages/simtbx/diffBragg/hopper_utils.py usr/lib/python3.13/dist-packages/simtbx/diffBragg/mpi_logger.py usr/lib/python3.13/dist-packages/simtbx/diffBragg/parameter_errors.py usr/lib/python3.13/dist-packages/simtbx/diffBragg/phil.py usr/lib/python3.13/dist-packages/simtbx/diffBragg/prep_stage2_input.py usr/lib/python3.13/dist-packages/simtbx/diffBragg/psf.py usr/lib/python3.13/dist-packages/simtbx/diffBragg/stage_two_utils.py usr/lib/python3.13/dist-packages/simtbx/diffBragg/utils.py usr/lib/python3.13/dist-packages/simtbx/diffBragg/refiners/ usr/lib/python3.13/dist-packages/simtbx/diffBragg/refiners/__init__.py usr/lib/python3.13/dist-packages/simtbx/diffBragg/refiners/base_refiner.py usr/lib/python3.13/dist-packages/simtbx/diffBragg/refiners/geometry.py usr/lib/python3.13/dist-packages/simtbx/diffBragg/refiners/parameters.py usr/lib/python3.13/dist-packages/simtbx/diffBragg/refiners/stage_two_refiner.py usr/lib/python3.13/dist-packages/simtbx/diffBragg/refiners/crystal_systems/ usr/lib/python3.13/dist-packages/simtbx/diffBragg/refiners/crystal_systems/__init__.py usr/lib/python3.13/dist-packages/simtbx/diffBragg/refiners/crystal_systems/hexagonal.py usr/lib/python3.13/dist-packages/simtbx/diffBragg/refiners/crystal_systems/manager.py usr/lib/python3.13/dist-packages/simtbx/diffBragg/refiners/crystal_systems/monoclinic.py usr/lib/python3.13/dist-packages/simtbx/diffBragg/refiners/crystal_systems/orthorhombic.py usr/lib/python3.13/dist-packages/simtbx/diffBragg/refiners/crystal_systems/tetragonal.py usr/lib/python3.13/dist-packages/simtbx/gpu/ usr/lib/python3.13/dist-packages/simtbx/gpu/__init__.py usr/lib/python3.13/dist-packages/simtbx/gpu/tst_exafel_api.py usr/lib/python3.13/dist-packages/simtbx/gpu/tst_gpu_multisource_background.py usr/lib/python3.13/dist-packages/simtbx/gpu/tst_shoeboxes.py usr/lib/python3.13/dist-packages/simtbx/kokkos/ usr/lib/python3.13/dist-packages/simtbx/kokkos/__init__.py usr/lib/python3.13/dist-packages/simtbx/kokkos/tst_kokkos_lib.py usr/lib/python3.13/dist-packages/simtbx/modeling/ usr/lib/python3.13/dist-packages/simtbx/modeling/FormatHDF5AttributeGeometry.py usr/lib/python3.13/dist-packages/simtbx/modeling/__init__.py usr/lib/python3.13/dist-packages/simtbx/modeling/forward_models.py usr/lib/python3.13/dist-packages/simtbx/modeling/predictions.py usr/lib/python3.13/dist-packages/simtbx/nanoBragg/ usr/lib/python3.13/dist-packages/simtbx/nanoBragg/__init__.py usr/lib/python3.13/dist-packages/simtbx/nanoBragg/anisotropic_mosaicity.py usr/lib/python3.13/dist-packages/simtbx/nanoBragg/nanoBragg_beam.py usr/lib/python3.13/dist-packages/simtbx/nanoBragg/nanoBragg_crystal.py usr/lib/python3.13/dist-packages/simtbx/nanoBragg/nanoBragg_gui_dialogs.py usr/lib/python3.13/dist-packages/simtbx/nanoBragg/nanoBragg_gui_frames.py usr/lib/python3.13/dist-packages/simtbx/nanoBragg/nanoBragg_gui_init.py usr/lib/python3.13/dist-packages/simtbx/nanoBragg/nanoBragg_input.py usr/lib/python3.13/dist-packages/simtbx/nanoBragg/nanoBragg_threads.py usr/lib/python3.13/dist-packages/simtbx/nanoBragg/sim_data.py usr/lib/python3.13/dist-packages/simtbx/nanoBragg/tst_anisotropic_mosaicity.py usr/lib/python3.13/dist-packages/simtbx/nanoBragg/tst_gauss_argchk.py usr/lib/python3.13/dist-packages/simtbx/nanoBragg/tst_gaussian_mosaicity.py usr/lib/python3.13/dist-packages/simtbx/nanoBragg/tst_gaussian_mosaicity2.py usr/lib/python3.13/dist-packages/simtbx/nanoBragg/tst_multisource_background.py usr/lib/python3.13/dist-packages/simtbx/nanoBragg/tst_nanoBragg_basic.py usr/lib/python3.13/dist-packages/simtbx/nanoBragg/tst_nanoBragg_cbf_write.py usr/lib/python3.13/dist-packages/simtbx/nanoBragg/tst_nanoBragg_minimal.py usr/lib/python3.13/dist-packages/simtbx/nanoBragg/tst_nanoBragg_mosaic.py usr/lib/python3.13/dist-packages/simtbx/nanoBragg/tst_nanoBragg_multipanel.py usr/lib/python3.13/dist-packages/simtbx/nanoBragg/tst_nanoBragg_pilatus.py usr/lib/python3.13/dist-packages/simtbx/nanoBragg/utils.py usr/lib/python3.13/dist-packages/simtbx/pixel/ usr/lib/python3.13/dist-packages/simtbx/pixel/__init__.py usr/lib/python3.13/dist-packages/smtbx/ usr/lib/python3.13/dist-packages/smtbx/__init__.py usr/lib/python3.13/dist-packages/smtbx/development.py usr/lib/python3.13/dist-packages/smtbx/libtbx_refresh.py usr/lib/python3.13/dist-packages/smtbx/run_tests.py usr/lib/python3.13/dist-packages/smtbx/utils.py usr/lib/python3.13/dist-packages/smtbx/ab_initio/ usr/lib/python3.13/dist-packages/smtbx/ab_initio/__init__.py usr/lib/python3.13/dist-packages/smtbx/ab_initio/charge_flipping.py usr/lib/python3.13/dist-packages/smtbx/ab_initio/tests/ usr/lib/python3.13/dist-packages/smtbx/ab_initio/tests/__init__.py usr/lib/python3.13/dist-packages/smtbx/ab_initio/tests/tst_ab_initio_ext.py usr/lib/python3.13/dist-packages/smtbx/ab_initio/tests/tst_charge_flipping.py usr/lib/python3.13/dist-packages/smtbx/absolute_structure/ usr/lib/python3.13/dist-packages/smtbx/absolute_structure/__init__.py usr/lib/python3.13/dist-packages/smtbx/array_family/ usr/lib/python3.13/dist-packages/smtbx/array_family/__init__.py usr/lib/python3.13/dist-packages/smtbx/command_line/ usr/lib/python3.13/dist-packages/smtbx/command_line/__init__.py usr/lib/python3.13/dist-packages/smtbx/command_line/absolute_structure.py usr/lib/python3.13/dist-packages/smtbx/command_line/anom_refine.py usr/lib/python3.13/dist-packages/smtbx/command_line/benchmark_refinement.py usr/lib/python3.13/dist-packages/smtbx/command_line/masks.py usr/lib/python3.13/dist-packages/smtbx/command_line/refine.py usr/lib/python3.13/dist-packages/smtbx/masks/ usr/lib/python3.13/dist-packages/smtbx/masks/__init__.py usr/lib/python3.13/dist-packages/smtbx/refinement/ usr/lib/python3.13/dist-packages/smtbx/refinement/__init__.py usr/lib/python3.13/dist-packages/smtbx/refinement/least_squares.py usr/lib/python3.13/dist-packages/smtbx/refinement/weighting_schemes.py usr/lib/python3.13/dist-packages/smtbx/refinement/constraints/ usr/lib/python3.13/dist-packages/smtbx/refinement/constraints/__init__.py usr/lib/python3.13/dist-packages/smtbx/refinement/constraints/adp.py usr/lib/python3.13/dist-packages/smtbx/refinement/constraints/all.py usr/lib/python3.13/dist-packages/smtbx/refinement/constraints/fpfdp.py usr/lib/python3.13/dist-packages/smtbx/refinement/constraints/occupancy.py usr/lib/python3.13/dist-packages/smtbx/refinement/constraints/rigid.py usr/lib/python3.13/dist-packages/smtbx/refinement/constraints/site.py usr/lib/python3.13/dist-packages/smtbx/refinement/constraints/geometrical/ usr/lib/python3.13/dist-packages/smtbx/refinement/constraints/geometrical/__init__.py usr/lib/python3.13/dist-packages/smtbx/refinement/constraints/geometrical/all.py usr/lib/python3.13/dist-packages/smtbx/refinement/constraints/geometrical/hydrogens.py usr/lib/python3.13/dist-packages/smtbx/refinement/constraints/tests/ usr/lib/python3.13/dist-packages/smtbx/refinement/constraints/tests/__init__.py usr/lib/python3.13/dist-packages/smtbx/refinement/constraints/tests/tst_constrained_structure.py usr/lib/python3.13/dist-packages/smtbx/refinement/constraints/tests/tst_direction.py usr/lib/python3.13/dist-packages/smtbx/refinement/constraints/tests/tst_disorder.py usr/lib/python3.13/dist-packages/smtbx/refinement/constraints/tests/tst_lbfgs.py usr/lib/python3.13/dist-packages/smtbx/refinement/constraints/tests/tst_occupancies.py usr/lib/python3.13/dist-packages/smtbx/refinement/constraints/tests/tst_reparametrisation.py usr/lib/python3.13/dist-packages/smtbx/refinement/constraints/tests/tst_rigid.py usr/lib/python3.13/dist-packages/smtbx/refinement/constraints/tests/tst_same_group.py usr/lib/python3.13/dist-packages/smtbx/refinement/restraints/ usr/lib/python3.13/dist-packages/smtbx/refinement/restraints/__init__.py usr/lib/python3.13/dist-packages/smtbx/refinement/restraints/adp_restraints.py usr/lib/python3.13/dist-packages/smtbx/refinement/restraints/origin_fixing_restraints.py usr/lib/python3.13/dist-packages/smtbx/regression/ usr/lib/python3.13/dist-packages/smtbx/regression/__init__.py usr/lib/python3.13/dist-packages/smtbx/regression/tst_commandline_anomrefine.py usr/lib/python3.13/dist-packages/smtbx/regression/tst_commandline_refine.py usr/lib/python3.13/dist-packages/smtbx/regression/test_data/ usr/lib/python3.13/dist-packages/smtbx/regression/test_data/__init__.py usr/lib/python3.13/dist-packages/smtbx/source_generators/ usr/lib/python3.13/dist-packages/smtbx/source_generators/__init__.py usr/lib/python3.13/dist-packages/smtbx/source_generators/flex_fwd_h.py usr/lib/python3.13/dist-packages/smtbx/stl/ usr/lib/python3.13/dist-packages/smtbx/stl/__init__.py usr/lib/python3.13/dist-packages/smtbx/stl/map.py usr/lib/python3.13/dist-packages/smtbx/structure_factors/ usr/lib/python3.13/dist-packages/smtbx/structure_factors/__init__.py usr/lib/python3.13/dist-packages/smtbx/structure_factors/direct/ usr/lib/python3.13/dist-packages/smtbx/structure_factors/direct/__init__.py usr/lib/python3.13/dist-packages/spotfinder/ usr/lib/python3.13/dist-packages/spotfinder/__init__.py usr/lib/python3.13/dist-packages/spotfinder/exception.py usr/lib/python3.13/dist-packages/spotfinder/run_tests.py usr/lib/python3.13/dist-packages/spotfinder/applications/ usr/lib/python3.13/dist-packages/spotfinder/applications/__init__.py usr/lib/python3.13/dist-packages/spotfinder/applications/image_viewer.py usr/lib/python3.13/dist-packages/spotfinder/applications/practical_heuristics.py usr/lib/python3.13/dist-packages/spotfinder/applications/signal_strength.py usr/lib/python3.13/dist-packages/spotfinder/applications/stats_distl.py usr/lib/python3.13/dist-packages/spotfinder/applications/wrappers.py usr/lib/python3.13/dist-packages/spotfinder/applications/heuristic_tbx/ usr/lib/python3.13/dist-packages/spotfinder/applications/heuristic_tbx/__init__.py usr/lib/python3.13/dist-packages/spotfinder/applications/heuristic_tbx/ice2.py usr/lib/python3.13/dist-packages/spotfinder/applications/heuristic_tbx/ice_nztt.py usr/lib/python3.13/dist-packages/spotfinder/applications/heuristic_tbx/method2_resolution.py usr/lib/python3.13/dist-packages/spotfinder/applications/heuristic_tbx/spotreporter.py usr/lib/python3.13/dist-packages/spotfinder/applications/xfel/ usr/lib/python3.13/dist-packages/spotfinder/applications/xfel/__init__.py usr/lib/python3.13/dist-packages/spotfinder/applications/xfel/correction_vector_plot.py usr/lib/python3.13/dist-packages/spotfinder/applications/xfel/cxi_phil.py usr/lib/python3.13/dist-packages/spotfinder/applications/xfel/cxi_run3.py usr/lib/python3.13/dist-packages/spotfinder/array_family/ usr/lib/python3.13/dist-packages/spotfinder/array_family/__init__.py usr/lib/python3.13/dist-packages/spotfinder/array_family/flex.py usr/lib/python3.13/dist-packages/spotfinder/command_line/ usr/lib/python3.13/dist-packages/spotfinder/command_line/__init__.py usr/lib/python3.13/dist-packages/spotfinder/command_line/find_active_area.py usr/lib/python3.13/dist-packages/spotfinder/command_line/image_viewer.py usr/lib/python3.13/dist-packages/spotfinder/command_line/mp_spotfinder_server_read_file.py usr/lib/python3.13/dist-packages/spotfinder/command_line/signal_strength.py usr/lib/python3.13/dist-packages/spotfinder/command_line/sweep_strength.py usr/lib/python3.13/dist-packages/spotfinder/command_line/thin_client.py usr/lib/python3.13/dist-packages/spotfinder/core_toolbox/ usr/lib/python3.13/dist-packages/spotfinder/core_toolbox/__init__.py usr/lib/python3.13/dist-packages/spotfinder/core_toolbox/close_spots_detail.py usr/lib/python3.13/dist-packages/spotfinder/diffraction/ usr/lib/python3.13/dist-packages/spotfinder/diffraction/__init__.py usr/lib/python3.13/dist-packages/spotfinder/diffraction/geometry.py usr/lib/python3.13/dist-packages/spotfinder/diffraction/imagefiles.py usr/lib/python3.13/dist-packages/spotfinder/dxtbx_toolbox/ usr/lib/python3.13/dist-packages/spotfinder/dxtbx_toolbox/__init__.py usr/lib/python3.13/dist-packages/spotfinder/dxtbx_toolbox/practical_heuristics.py usr/lib/python3.13/dist-packages/spotfinder/math_support/ usr/lib/python3.13/dist-packages/spotfinder/math_support/__init__.py usr/lib/python3.13/dist-packages/spotfinder/math_support/sphere_formulae.py usr/lib/python3.13/dist-packages/spotfinder/servers/ usr/lib/python3.13/dist-packages/spotfinder/servers/__init__.py usr/lib/python3.13/dist-packages/spotfinder/servers/adsc_client.py usr/lib/python3.13/dist-packages/spotfinder/servers/apache.py usr/lib/python3.13/dist-packages/spotfinder/servers/apache_bcsb.py usr/lib/python3.13/dist-packages/spotfinder/servers/apache_dials.py usr/lib/python3.13/dist-packages/spotfinder/servers/apache_utils.py usr/lib/python3.13/dist-packages/spotfinder/servers/bcsb_client_example.py usr/lib/python3.13/dist-packages/spotfinder/servers/general_client_example.py usr/lib/python3.13/dist-packages/spotfinder/servers/mp_spotfinder_server_is_alive.py usr/lib/python3.13/dist-packages/spotfinder/servers/mp_spotfinder_server_read_file.py usr/lib/python3.13/dist-packages/spotfinder/servers/multipart_encoder.py usr/lib/python3.13/dist-packages/spotfinder/servers/pilatus_client.py usr/lib/python3.13/dist-packages/spotfinder/servers/specific_client_example.py usr/lib/python3.13/dist-packages/spotfinder/servers/spotfinder_server_client_push.py usr/lib/python3.13/dist-packages/spotfinder/servers/spotfinder_server_read_file.py usr/lib/python3.13/dist-packages/spotfinder/servers/thin_client.py usr/lib/python3.13/dist-packages/wxtbx/ usr/lib/python3.13/dist-packages/wxtbx/__init__.py usr/lib/python3.13/dist-packages/wxtbx/adp_statistics.py usr/lib/python3.13/dist-packages/wxtbx/anomalous_scattering.py usr/lib/python3.13/dist-packages/wxtbx/app.py usr/lib/python3.13/dist-packages/wxtbx/b_plot.py usr/lib/python3.13/dist-packages/wxtbx/bitmaps.py usr/lib/python3.13/dist-packages/wxtbx/browser.py usr/lib/python3.13/dist-packages/wxtbx/checklistctrl.py usr/lib/python3.13/dist-packages/wxtbx/custom_restraints.py usr/lib/python3.13/dist-packages/wxtbx/ensemble_validation.py usr/lib/python3.13/dist-packages/wxtbx/errors.py usr/lib/python3.13/dist-packages/wxtbx/heavy_atoms.py usr/lib/python3.13/dist-packages/wxtbx/icons.py usr/lib/python3.13/dist-packages/wxtbx/info_panels.py usr/lib/python3.13/dist-packages/wxtbx/layout.py usr/lib/python3.13/dist-packages/wxtbx/listeditor.py usr/lib/python3.13/dist-packages/wxtbx/metallicbutton.py usr/lib/python3.13/dist-packages/wxtbx/misc_dialogs.py usr/lib/python3.13/dist-packages/wxtbx/monitor.py usr/lib/python3.13/dist-packages/wxtbx/mtz_dump.py usr/lib/python3.13/dist-packages/wxtbx/path_dialogs.py usr/lib/python3.13/dist-packages/wxtbx/pdb_editor.py usr/lib/python3.13/dist-packages/wxtbx/polygon.py usr/lib/python3.13/dist-packages/wxtbx/polygon_db_viewer.py usr/lib/python3.13/dist-packages/wxtbx/process_control.py usr/lib/python3.13/dist-packages/wxtbx/qstat_view.py usr/lib/python3.13/dist-packages/wxtbx/segmentedctrl.py usr/lib/python3.13/dist-packages/wxtbx/sequence_view.py usr/lib/python3.13/dist-packages/wxtbx/symmetry_dialog.py usr/lib/python3.13/dist-packages/wxtbx/tables.py usr/lib/python3.13/dist-packages/wxtbx/utils.py usr/lib/python3.13/dist-packages/wxtbx/windows.py usr/lib/python3.13/dist-packages/wxtbx/wx4_compatibility.py usr/lib/python3.13/dist-packages/wxtbx/xtriage.py usr/lib/python3.13/dist-packages/wxtbx/command_line/ usr/lib/python3.13/dist-packages/wxtbx/command_line/__init__.py usr/lib/python3.13/dist-packages/wxtbx/command_line/anomalous_differences_histogram.py usr/lib/python3.13/dist-packages/wxtbx/command_line/b_plot.py usr/lib/python3.13/dist-packages/wxtbx/command_line/inspect_r_free_flags.py usr/lib/python3.13/dist-packages/wxtbx/command_line/loggraph.py usr/lib/python3.13/dist-packages/wxtbx/command_line/pdb_editor.py usr/lib/python3.13/dist-packages/wxtbx/command_line/pdb_statistics.py usr/lib/python3.13/dist-packages/wxtbx/command_line/plan_sad_experiment.py usr/lib/python3.13/dist-packages/wxtbx/command_line/plot_anomalous_scattering.py usr/lib/python3.13/dist-packages/wxtbx/command_line/show_file_info.py usr/lib/python3.13/dist-packages/wxtbx/command_line/wxpython.py usr/lib/python3.13/dist-packages/wxtbx/command_line/xtriage.py usr/lib/python3.13/dist-packages/wxtbx/phil_controls/ usr/lib/python3.13/dist-packages/wxtbx/phil_controls/__init__.py usr/lib/python3.13/dist-packages/wxtbx/phil_controls/array_label.py usr/lib/python3.13/dist-packages/wxtbx/phil_controls/boolctrl.py usr/lib/python3.13/dist-packages/wxtbx/phil_controls/choice.py usr/lib/python3.13/dist-packages/wxtbx/phil_controls/choice_multi.py usr/lib/python3.13/dist-packages/wxtbx/phil_controls/floatctrl.py usr/lib/python3.13/dist-packages/wxtbx/phil_controls/floats.py usr/lib/python3.13/dist-packages/wxtbx/phil_controls/intctrl.py usr/lib/python3.13/dist-packages/wxtbx/phil_controls/ints.py usr/lib/python3.13/dist-packages/wxtbx/phil_controls/misc_ctrls.py usr/lib/python3.13/dist-packages/wxtbx/phil_controls/numbers.py usr/lib/python3.13/dist-packages/wxtbx/phil_controls/path.py usr/lib/python3.13/dist-packages/wxtbx/phil_controls/simple_dialogs.py usr/lib/python3.13/dist-packages/wxtbx/phil_controls/space_group.py usr/lib/python3.13/dist-packages/wxtbx/phil_controls/strctrl.py usr/lib/python3.13/dist-packages/wxtbx/phil_controls/strings.py usr/lib/python3.13/dist-packages/wxtbx/phil_controls/symop.py usr/lib/python3.13/dist-packages/wxtbx/phil_controls/text_base.py usr/lib/python3.13/dist-packages/wxtbx/phil_controls/tree.py usr/lib/python3.13/dist-packages/wxtbx/phil_controls/tribool.py usr/lib/python3.13/dist-packages/wxtbx/phil_controls/unit_cell.py usr/lib/python3.13/dist-packages/wxtbx/plots/ usr/lib/python3.13/dist-packages/wxtbx/plots/__init__.py usr/lib/python3.13/dist-packages/wxtbx/plots/emringer.py usr/lib/python3.13/dist-packages/wxtbx/plots/molprobity.py usr/lib/python3.13/dist-packages/wxtbx/reports/ usr/lib/python3.13/dist-packages/wxtbx/reports/__init__.py usr/lib/python3.13/dist-packages/wxtbx/reports/blast.py usr/lib/python3.13/dist-packages/wxtbx/reports/pdb_symmetry.py usr/lib/python3.13/dist-packages/xcif/ usr/lib/python3.13/dist-packages/xcif/__init__.py usr/lib/python3.13/dist-packages/xcif/run_tests.py usr/lib/python3.13/dist-packages/xcif/benchmarks/ usr/lib/python3.13/dist-packages/xcif/benchmarks/__init__.py usr/lib/python3.13/dist-packages/xcif/benchmarks/run_benchmarks.py usr/lib/python3.13/dist-packages/xcif/regression/ usr/lib/python3.13/dist-packages/xcif/regression/__init__.py usr/lib/python3.13/dist-packages/xcif/regression/tst_api_compat.py usr/lib/python3.13/dist-packages/xcif/regression/tst_bindings.py usr/lib/python3.13/dist-packages/xcif/regression/tst_example_parse.py usr/lib/python3.13/dist-packages/xcif/regression/tst_example_tokenize.py usr/lib/python3.13/dist-packages/xcif/regression/tst_gil_release.py usr/lib/python3.13/dist-packages/xcif/regression/tst_iotbx_cif_reader_engine.py usr/lib/python3.13/dist-packages/xcif/regression/tst_iotbx_cif_reader_parity.py usr/lib/python3.13/dist-packages/xcif/regression/tst_memory.py usr/lib/python3.13/dist-packages/xcif/regression/tst_non_strict_mode.py usr/lib/python3.13/dist-packages/xcif/regression/tst_parse_verify.py usr/lib/python3.13/dist-packages/xcif/regression/tst_pdb_coordinates.py usr/lib/python3.13/dist-packages/xcif/regression/tst_pdb_sf.py usr/lib/python3.13/dist-packages/xcif/regression/tst_quoted_string_delimiter.py usr/lib/python3.13/dist-packages/xcif/regression/tst_roundtrip.py usr/lib/python3.13/dist-packages/xcif/regression/tst_semicolon_field_strict.py usr/lib/python3.13/dist-packages/xcif/regression/tst_string_interning.py usr/lib/python3.13/dist-packages/xcif/regression/tst_utf8.py usr/lib/python3.14/ usr/lib/python3.14/dist-packages/ usr/lib/python3.14/dist-packages/annlib_ext.so usr/lib/python3.14/dist-packages/boost_adaptbx_boost_thread_test_ext.so usr/lib/python3.14/dist-packages/boost_adaptbx_graph_breadth_first_search_ext.so usr/lib/python3.14/dist-packages/boost_adaptbx_graph_clustering_algorithm_ext.so usr/lib/python3.14/dist-packages/boost_adaptbx_graph_connected_component_algorithm_ext.so usr/lib/python3.14/dist-packages/boost_adaptbx_graph_ext.so usr/lib/python3.14/dist-packages/boost_adaptbx_graph_graph_structure_comparison_ext.so usr/lib/python3.14/dist-packages/boost_adaptbx_graph_maximum_clique_ext.so usr/lib/python3.14/dist-packages/boost_adaptbx_graph_metric_ext.so usr/lib/python3.14/dist-packages/boost_adaptbx_graph_min_cut_max_flow_ext.so usr/lib/python3.14/dist-packages/boost_adaptbx_graph_utility_ext.so usr/lib/python3.14/dist-packages/boost_adaptbx_python_streambuf_test_ext.so usr/lib/python3.14/dist-packages/boost_optional_ext.so usr/lib/python3.14/dist-packages/boost_python_hybrid_times_ext.so usr/lib/python3.14/dist-packages/boost_python_meta_ext.so usr/lib/python3.14/dist-packages/boost_rational_ext.so usr/lib/python3.14/dist-packages/boost_tuple_ext.so usr/lib/python3.14/dist-packages/cbflib_ext.so usr/lib/python3.14/dist-packages/ccp4io_adaptbx_ext.so usr/lib/python3.14/dist-packages/cctbx_adp_restraints_ext.so usr/lib/python3.14/dist-packages/cctbx_adptbx_ext.so usr/lib/python3.14/dist-packages/cctbx_anharmonic_ext.so usr/lib/python3.14/dist-packages/cctbx_array_family_flex_ext.so usr/lib/python3.14/dist-packages/cctbx_asymmetric_map_ext.so usr/lib/python3.14/dist-packages/cctbx_covariance_ext.so usr/lib/python3.14/dist-packages/cctbx_crystal_ext.so usr/lib/python3.14/dist-packages/cctbx_dmtbx_ext.so usr/lib/python3.14/dist-packages/cctbx_eltbx_attenuation_coefficient_ext.so usr/lib/python3.14/dist-packages/cctbx_eltbx_chemical_elements_ext.so usr/lib/python3.14/dist-packages/cctbx_eltbx_covalent_radii_ext.so usr/lib/python3.14/dist-packages/cctbx_eltbx_fp_fdp_ext.so usr/lib/python3.14/dist-packages/cctbx_eltbx_henke_ext.so usr/lib/python3.14/dist-packages/cctbx_eltbx_icsd_radii_ext.so usr/lib/python3.14/dist-packages/cctbx_eltbx_neutron_ext.so usr/lib/python3.14/dist-packages/cctbx_eltbx_sasaki_ext.so usr/lib/python3.14/dist-packages/cctbx_eltbx_tiny_pse_ext.so usr/lib/python3.14/dist-packages/cctbx_eltbx_wavelengths_ext.so usr/lib/python3.14/dist-packages/cctbx_eltbx_xray_scattering_ext.so usr/lib/python3.14/dist-packages/cctbx_emma_ext.so usr/lib/python3.14/dist-packages/cctbx_french_wilson_ext.so usr/lib/python3.14/dist-packages/cctbx_geometry_ext.so usr/lib/python3.14/dist-packages/cctbx_geometry_restraints_ext.so usr/lib/python3.14/dist-packages/cctbx_maptbx_bcr_bcr_ext.so usr/lib/python3.14/dist-packages/cctbx_maptbx_ext.so usr/lib/python3.14/dist-packages/cctbx_masks_ext.so usr/lib/python3.14/dist-packages/cctbx_math_ext.so usr/lib/python3.14/dist-packages/cctbx_merging_ext.so usr/lib/python3.14/dist-packages/cctbx_miller_ext.so usr/lib/python3.14/dist-packages/cctbx_multipolar_ext.so usr/lib/python3.14/dist-packages/cctbx_orientation_ext.so usr/lib/python3.14/dist-packages/cctbx_sgtbx_asu_ext.so usr/lib/python3.14/dist-packages/cctbx_sgtbx_ext.so usr/lib/python3.14/dist-packages/cctbx_statistics_ext.so usr/lib/python3.14/dist-packages/cctbx_symmetry_search_ext.so usr/lib/python3.14/dist-packages/cctbx_translation_search_ext.so usr/lib/python3.14/dist-packages/cctbx_uctbx_ext.so usr/lib/python3.14/dist-packages/cctbx_xray_ext.so usr/lib/python3.14/dist-packages/cctbx_xray_observations_ext.so usr/lib/python3.14/dist-packages/cma_es_ext.so usr/lib/python3.14/dist-packages/determine_unit_cell_ext.so usr/lib/python3.14/dist-packages/dxtbx_ext.so usr/lib/python3.14/dist-packages/dxtbx_flumpy.so usr/lib/python3.14/dist-packages/dxtbx_format_image_ext.so usr/lib/python3.14/dist-packages/dxtbx_format_nexus_ext.so usr/lib/python3.14/dist-packages/dxtbx_imageset_ext.so usr/lib/python3.14/dist-packages/dxtbx_masking_ext.so usr/lib/python3.14/dist-packages/dxtbx_model_ext.so usr/lib/python3.14/dist-packages/fable_ext.so usr/lib/python3.14/dist-packages/gltbx_fonts_ext.so usr/lib/python3.14/dist-packages/gltbx_gl_ext.so usr/lib/python3.14/dist-packages/gltbx_glu_ext.so usr/lib/python3.14/dist-packages/gltbx_quadrics_ext.so usr/lib/python3.14/dist-packages/gltbx_util_ext.so usr/lib/python3.14/dist-packages/gltbx_viewer_utils_ext.so usr/lib/python3.14/dist-packages/iotbx_ccp4_map_ext.so usr/lib/python3.14/dist-packages/iotbx_cif_ext.so usr/lib/python3.14/dist-packages/iotbx_detectors_bruker_ext.so usr/lib/python3.14/dist-packages/iotbx_detectors_ext.so usr/lib/python3.14/dist-packages/iotbx_dsn6_map_ext.so usr/lib/python3.14/dist-packages/iotbx_dtrek_ext.so usr/lib/python3.14/dist-packages/iotbx_mtz_ext.so usr/lib/python3.14/dist-packages/iotbx_pdb_ext.so usr/lib/python3.14/dist-packages/iotbx_pdb_hierarchy_ext.so usr/lib/python3.14/dist-packages/iotbx_scalepack_ext.so usr/lib/python3.14/dist-packages/iotbx_shelx_ext.so usr/lib/python3.14/dist-packages/iotbx_wildcard_ext.so usr/lib/python3.14/dist-packages/iotbx_xplor_ext.so usr/lib/python3.14/dist-packages/mmtbx_alignment_ext.so usr/lib/python3.14/dist-packages/mmtbx_building_loop_closure_ext.so usr/lib/python3.14/dist-packages/mmtbx_bulk_solvent_ext.so usr/lib/python3.14/dist-packages/mmtbx_den_restraints_ext.so usr/lib/python3.14/dist-packages/mmtbx_dssp_ext.so usr/lib/python3.14/dist-packages/mmtbx_dynamics_ext.so usr/lib/python3.14/dist-packages/mmtbx_f_model_ext.so usr/lib/python3.14/dist-packages/mmtbx_geometry_asa_ext.so usr/lib/python3.14/dist-packages/mmtbx_geometry_clash_ext.so usr/lib/python3.14/dist-packages/mmtbx_geometry_indexing_ext.so usr/lib/python3.14/dist-packages/mmtbx_geometry_primitive_ext.so usr/lib/python3.14/dist-packages/mmtbx_geometry_shared_types_ext.so usr/lib/python3.14/dist-packages/mmtbx_geometry_sphere_surface_sampling_ext.so usr/lib/python3.14/dist-packages/mmtbx_hydrogens_ext.so usr/lib/python3.14/dist-packages/mmtbx_masks_ext.so usr/lib/python3.14/dist-packages/mmtbx_max_lik_ext.so usr/lib/python3.14/dist-packages/mmtbx_mosaic_ext.so usr/lib/python3.14/dist-packages/mmtbx_ncs_cartesian_restraints_ext.so usr/lib/python3.14/dist-packages/mmtbx_ncs_ext.so usr/lib/python3.14/dist-packages/mmtbx_pair_interaction_ext.so usr/lib/python3.14/dist-packages/mmtbx_probe_ext.so usr/lib/python3.14/dist-packages/mmtbx_ramachandran_restraints_ext.so usr/lib/python3.14/dist-packages/mmtbx_reduce_ext.so usr/lib/python3.14/dist-packages/mmtbx_reference_coordinate_ext.so usr/lib/python3.14/dist-packages/mmtbx_rotamer_fit_ext.so usr/lib/python3.14/dist-packages/mmtbx_rsr_ext.so usr/lib/python3.14/dist-packages/mmtbx_scaling_ext.so usr/lib/python3.14/dist-packages/mmtbx_secondary_structure_ext.so usr/lib/python3.14/dist-packages/mmtbx_tls_decompose_ext.so usr/lib/python3.14/dist-packages/mmtbx_tls_ext.so usr/lib/python3.14/dist-packages/mmtbx_tls_optimise_amplitudes_ext.so usr/lib/python3.14/dist-packages/mmtbx_tls_utils_ext.so usr/lib/python3.14/dist-packages/mmtbx_utils_ext.so usr/lib/python3.14/dist-packages/mmtbx_validation_ramachandran_ext.so usr/lib/python3.14/dist-packages/omptbx_ext.so usr/lib/python3.14/dist-packages/regression_test_ext.so usr/lib/python3.14/dist-packages/rstbx_array_family_flex_ext.so usr/lib/python3.14/dist-packages/rstbx_bandpass_ext.so usr/lib/python3.14/dist-packages/rstbx_bpcx_detector_model_ext.so usr/lib/python3.14/dist-packages/rstbx_diffraction_fastbragg_ext.so usr/lib/python3.14/dist-packages/rstbx_ext.so usr/lib/python3.14/dist-packages/rstbx_indexing_api_ext.so usr/lib/python3.14/dist-packages/rstbx_integration_ext.so usr/lib/python3.14/dist-packages/rstbx_simage_ext.so usr/lib/python3.14/dist-packages/rstbx_simulation_ext.so usr/lib/python3.14/dist-packages/rstbx_symmetry_constraints_ext.so usr/lib/python3.14/dist-packages/scitbx_array_family_flex_ext.so usr/lib/python3.14/dist-packages/scitbx_array_family_shared_ext.so usr/lib/python3.14/dist-packages/scitbx_cubicle_neighbors_ext.so usr/lib/python3.14/dist-packages/scitbx_fftpack_ext.so usr/lib/python3.14/dist-packages/scitbx_glmtbx_ext.so usr/lib/python3.14/dist-packages/scitbx_graphics_utils_ext.so usr/lib/python3.14/dist-packages/scitbx_iso_surface_ext.so usr/lib/python3.14/dist-packages/scitbx_lbfgs_ext.so usr/lib/python3.14/dist-packages/scitbx_lbfgsb_ext.so usr/lib/python3.14/dist-packages/scitbx_linalg_ext.so usr/lib/python3.14/dist-packages/scitbx_lstbx_normal_equations_ext.so usr/lib/python3.14/dist-packages/scitbx_math_ext.so usr/lib/python3.14/dist-packages/scitbx_minpack_ext.so usr/lib/python3.14/dist-packages/scitbx_r3_utils_ext.so usr/lib/python3.14/dist-packages/scitbx_random_ext.so usr/lib/python3.14/dist-packages/scitbx_rigid_body_ext.so 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usr/lib/python3.14/dist-packages/boost/python.py usr/lib/python3.14/dist-packages/boost/rational.py usr/lib/python3.14/dist-packages/boost/std_pair.py usr/lib/python3.14/dist-packages/boost/tuple.py usr/lib/python3.14/dist-packages/boost_adaptbx/ usr/lib/python3.14/dist-packages/boost_adaptbx/__init__.py usr/lib/python3.14/dist-packages/boost_adaptbx/hybrid_times.py usr/lib/python3.14/dist-packages/boost_adaptbx/libtbx_refresh.py usr/lib/python3.14/dist-packages/boost_adaptbx/run_tests.py usr/lib/python3.14/dist-packages/boost_adaptbx/boost/ usr/lib/python3.14/dist-packages/boost_adaptbx/boost/__init__.py usr/lib/python3.14/dist-packages/boost_adaptbx/boost/optional.py usr/lib/python3.14/dist-packages/boost_adaptbx/boost/python.py usr/lib/python3.14/dist-packages/boost_adaptbx/boost/rational.py usr/lib/python3.14/dist-packages/boost_adaptbx/boost/std_pair.py usr/lib/python3.14/dist-packages/boost_adaptbx/boost/tuple.py usr/lib/python3.14/dist-packages/boost_adaptbx/command_line/ usr/lib/python3.14/dist-packages/boost_adaptbx/command_line/__init__.py usr/lib/python3.14/dist-packages/boost_adaptbx/command_line/divide_by_zero.py usr/lib/python3.14/dist-packages/boost_adaptbx/command_line/double_overflow.py usr/lib/python3.14/dist-packages/boost_adaptbx/command_line/gcd.py usr/lib/python3.14/dist-packages/boost_adaptbx/command_line/inexact.py usr/lib/python3.14/dist-packages/boost_adaptbx/command_line/int_overflow.py usr/lib/python3.14/dist-packages/boost_adaptbx/command_line/lcm.py usr/lib/python3.14/dist-packages/boost_adaptbx/command_line/nested_cpp_loops_with_check_signals.py usr/lib/python3.14/dist-packages/boost_adaptbx/command_line/segmentation_fault.py usr/lib/python3.14/dist-packages/boost_adaptbx/command_line/show_environ_usage.py usr/lib/python3.14/dist-packages/boost_adaptbx/command_line/show_platform_info.py usr/lib/python3.14/dist-packages/boost_adaptbx/graph/ usr/lib/python3.14/dist-packages/boost_adaptbx/graph/__init__.py usr/lib/python3.14/dist-packages/boost_adaptbx/graph/breadth_first_search.py usr/lib/python3.14/dist-packages/boost_adaptbx/graph/clustering_algorithm.py usr/lib/python3.14/dist-packages/boost_adaptbx/graph/connected_component_algorithm.py usr/lib/python3.14/dist-packages/boost_adaptbx/graph/graph_structure_comparison.py usr/lib/python3.14/dist-packages/boost_adaptbx/graph/maximum_clique.py usr/lib/python3.14/dist-packages/boost_adaptbx/graph/metric.py usr/lib/python3.14/dist-packages/boost_adaptbx/graph/min_cut_max_flow.py usr/lib/python3.14/dist-packages/boost_adaptbx/graph/minimum_cut_enumerate.py usr/lib/python3.14/dist-packages/boost_adaptbx/graph/utility.py usr/lib/python3.14/dist-packages/cbflib_adaptbx/ usr/lib/python3.14/dist-packages/cbflib_adaptbx/__init__.py usr/lib/python3.14/dist-packages/cbflib_adaptbx/copy_files.py usr/lib/python3.14/dist-packages/cbflib_adaptbx/exercise_compression.py usr/lib/python3.14/dist-packages/cbflib_adaptbx/run_tests.py usr/lib/python3.14/dist-packages/cbflib_adaptbx/command_line/ usr/lib/python3.14/dist-packages/cbflib_adaptbx/command_line/__init__.py usr/lib/python3.14/dist-packages/cbflib_adaptbx/command_line/dump.py usr/lib/python3.14/dist-packages/ccp4io_adaptbx/ usr/lib/python3.14/dist-packages/ccp4io_adaptbx/__init__.py usr/lib/python3.14/dist-packages/ccp4io_adaptbx/copy_files.py usr/lib/python3.14/dist-packages/ccp4io_adaptbx/tst.py usr/lib/python3.14/dist-packages/cctbx-2023.12.dist-info/ usr/lib/python3.14/dist-packages/cctbx-2023.12.dist-info/METADATA usr/lib/python3.14/dist-packages/cctbx-2023.12.dist-info/RECORD usr/lib/python3.14/dist-packages/cctbx-2023.12.dist-info/WHEEL usr/lib/python3.14/dist-packages/cctbx-2023.12.dist-info/top_level.txt usr/lib/python3.14/dist-packages/cctbx-2023.12.dist-info/licenses/ usr/lib/python3.14/dist-packages/cctbx-2023.12.dist-info/licenses/LICENSE.txt usr/lib/python3.14/dist-packages/cctbx/ usr/lib/python3.14/dist-packages/cctbx/__init__.py usr/lib/python3.14/dist-packages/cctbx/adptbx.py usr/lib/python3.14/dist-packages/cctbx/anharmonic.py usr/lib/python3.14/dist-packages/cctbx/crystal_orientation.py usr/lib/python3.14/dist-packages/cctbx/dmtbx.py usr/lib/python3.14/dist-packages/cctbx/euclidean_model_matching.py usr/lib/python3.14/dist-packages/cctbx/french_wilson.py usr/lib/python3.14/dist-packages/cctbx/libtbx_refresh.py usr/lib/python3.14/dist-packages/cctbx/math_module.py usr/lib/python3.14/dist-packages/cctbx/multipolar.py usr/lib/python3.14/dist-packages/cctbx/r_free_utils.py usr/lib/python3.14/dist-packages/cctbx/run_examples.py usr/lib/python3.14/dist-packages/cctbx/run_tests.py usr/lib/python3.14/dist-packages/cctbx/statistics.py usr/lib/python3.14/dist-packages/cctbx/symmetry_search.py usr/lib/python3.14/dist-packages/cctbx/translation_search.py usr/lib/python3.14/dist-packages/cctbx/adp_restraints/ usr/lib/python3.14/dist-packages/cctbx/adp_restraints/__init__.py usr/lib/python3.14/dist-packages/cctbx/adp_restraints/energies.py usr/lib/python3.14/dist-packages/cctbx/adp_restraints/flags.py usr/lib/python3.14/dist-packages/cctbx/adp_restraints/tst_ext.py usr/lib/python3.14/dist-packages/cctbx/array_family/ usr/lib/python3.14/dist-packages/cctbx/array_family/__init__.py usr/lib/python3.14/dist-packages/cctbx/array_family/flex.py usr/lib/python3.14/dist-packages/cctbx/command_line/ usr/lib/python3.14/dist-packages/cctbx/command_line/__init__.py usr/lib/python3.14/dist-packages/cctbx/command_line/auto_sharpen.py usr/lib/python3.14/dist-packages/cctbx/command_line/brehm_diederichs.py usr/lib/python3.14/dist-packages/cctbx/command_line/cctbx_test_nightly.py usr/lib/python3.14/dist-packages/cctbx/command_line/cod_select_and_pickle.py usr/lib/python3.14/dist-packages/cctbx/command_line/diffuse.py usr/lib/python3.14/dist-packages/cctbx/command_line/eltbx.show_fp_fdp.py usr/lib/python3.14/dist-packages/cctbx/command_line/euclidean_model_matching.py usr/lib/python3.14/dist-packages/cctbx/command_line/find_reticular_twin_laws.py usr/lib/python3.14/dist-packages/cctbx/command_line/form_factor_query.py usr/lib/python3.14/dist-packages/cctbx/command_line/precession_view.py usr/lib/python3.14/dist-packages/cctbx/command_line/qscore.py usr/lib/python3.14/dist-packages/cctbx/command_line/samosa_join.py usr/lib/python3.14/dist-packages/cctbx/command_line/samosa_scale.py usr/lib/python3.14/dist-packages/cctbx/command_line/segment_and_split_map.py usr/lib/python3.14/dist-packages/cctbx/command_line/space_group_info.py usr/lib/python3.14/dist-packages/cctbx/command_line/structure_factor_timings.py usr/lib/python3.14/dist-packages/cctbx/command_line/subgroups.py usr/lib/python3.14/dist-packages/cctbx/command_line/version.py usr/lib/python3.14/dist-packages/cctbx/command_line/wavelength_units.py usr/lib/python3.14/dist-packages/cctbx/covariance/ usr/lib/python3.14/dist-packages/cctbx/covariance/__init__.py usr/lib/python3.14/dist-packages/cctbx/crystal/ usr/lib/python3.14/dist-packages/cctbx/crystal/__init__.py usr/lib/python3.14/dist-packages/cctbx/crystal/burzlaff_zimmermann_dewolff.py usr/lib/python3.14/dist-packages/cctbx/crystal/close_packing.py usr/lib/python3.14/dist-packages/cctbx/crystal/coordination_sequences.py usr/lib/python3.14/dist-packages/cctbx/crystal/direct_space_asu.py usr/lib/python3.14/dist-packages/cctbx/crystal/distance_based_connectivity.py usr/lib/python3.14/dist-packages/cctbx/crystal/find_best_cell.py usr/lib/python3.14/dist-packages/cctbx/crystal/reindex.py usr/lib/python3.14/dist-packages/cctbx/crystal/super_cell.py usr/lib/python3.14/dist-packages/cctbx/crystal/tst_distance_based_connectivity.py usr/lib/python3.14/dist-packages/cctbx/crystal/tst_ext.py usr/lib/python3.14/dist-packages/cctbx/crystal/tst_super_cell.py usr/lib/python3.14/dist-packages/cctbx/development/ usr/lib/python3.14/dist-packages/cctbx/development/__init__.py usr/lib/python3.14/dist-packages/cctbx/development/approx_amplitude_vs_resolution.py usr/lib/python3.14/dist-packages/cctbx/development/cns_density_modification.py usr/lib/python3.14/dist-packages/cctbx/development/create_models_or_maps.py usr/lib/python3.14/dist-packages/cctbx/development/debug_utils.py usr/lib/python3.14/dist-packages/cctbx/development/direct_or_fft.py usr/lib/python3.14/dist-packages/cctbx/development/electron_density_sampling.py usr/lib/python3.14/dist-packages/cctbx/development/fmt_utils.py usr/lib/python3.14/dist-packages/cctbx/development/github.py usr/lib/python3.14/dist-packages/cctbx/development/make_cns_input.py usr/lib/python3.14/dist-packages/cctbx/development/make_settings.py usr/lib/python3.14/dist-packages/cctbx/development/random_structure.py usr/lib/python3.14/dist-packages/cctbx/development/run_shelx.py usr/lib/python3.14/dist-packages/cctbx/development/run_shelx76.py usr/lib/python3.14/dist-packages/cctbx/development/space_group_option_parser.py usr/lib/python3.14/dist-packages/cctbx/development/structure_factor_utils.py usr/lib/python3.14/dist-packages/cctbx/development/tst_cns_epsilon.py usr/lib/python3.14/dist-packages/cctbx/development/tst_cns_hl.py usr/lib/python3.14/dist-packages/cctbx/eltbx/ usr/lib/python3.14/dist-packages/cctbx/eltbx/__init__.py usr/lib/python3.14/dist-packages/cctbx/eltbx/attenuation_coefficient.py usr/lib/python3.14/dist-packages/cctbx/eltbx/chemical_elements.py usr/lib/python3.14/dist-packages/cctbx/eltbx/covalent_radii.py usr/lib/python3.14/dist-packages/cctbx/eltbx/distance_based_connectivity.py usr/lib/python3.14/dist-packages/cctbx/eltbx/e_scattering.py usr/lib/python3.14/dist-packages/cctbx/eltbx/formula.py usr/lib/python3.14/dist-packages/cctbx/eltbx/fp_fdp.py usr/lib/python3.14/dist-packages/cctbx/eltbx/gaussian_fit.py usr/lib/python3.14/dist-packages/cctbx/eltbx/henke.py usr/lib/python3.14/dist-packages/cctbx/eltbx/icsd_radii.py usr/lib/python3.14/dist-packages/cctbx/eltbx/neutron.py usr/lib/python3.14/dist-packages/cctbx/eltbx/read_custom_scattering_dict.py usr/lib/python3.14/dist-packages/cctbx/eltbx/sasaki.py usr/lib/python3.14/dist-packages/cctbx/eltbx/tiny_pse.py usr/lib/python3.14/dist-packages/cctbx/eltbx/van_der_waals_radii.py usr/lib/python3.14/dist-packages/cctbx/eltbx/wavelengths.py usr/lib/python3.14/dist-packages/cctbx/eltbx/development/ usr/lib/python3.14/dist-packages/cctbx/eltbx/development/__init__.py usr/lib/python3.14/dist-packages/cctbx/eltbx/development/combine_fits.py usr/lib/python3.14/dist-packages/cctbx/eltbx/development/create_n_gaussian_raw_cpp.py usr/lib/python3.14/dist-packages/cctbx/eltbx/development/e_scattering_plots.py usr/lib/python3.14/dist-packages/cctbx/eltbx/development/format_gaussian_fits.py usr/lib/python3.14/dist-packages/cctbx/eltbx/development/hydrogen_plots.py usr/lib/python3.14/dist-packages/cctbx/eltbx/development/itvc_approx.py usr/lib/python3.14/dist-packages/cctbx/eltbx/development/itvc_cross_validation.py usr/lib/python3.14/dist-packages/cctbx/eltbx/development/itvc_fits.py usr/lib/python3.14/dist-packages/cctbx/eltbx/development/itvc_kissel.py usr/lib/python3.14/dist-packages/cctbx/eltbx/development/itvc_section61_io.py usr/lib/python3.14/dist-packages/cctbx/eltbx/development/kissel_fits.py usr/lib/python3.14/dist-packages/cctbx/eltbx/development/kissel_io.py usr/lib/python3.14/dist-packages/cctbx/eltbx/development/rez_rez_grant.py usr/lib/python3.14/dist-packages/cctbx/eltbx/xray_scattering/ usr/lib/python3.14/dist-packages/cctbx/eltbx/xray_scattering/__init__.py usr/lib/python3.14/dist-packages/cctbx/examples/ usr/lib/python3.14/dist-packages/cctbx/examples/__init__.py usr/lib/python3.14/dist-packages/cctbx/examples/adp_symmetry_constraints.py usr/lib/python3.14/dist-packages/cctbx/examples/all_axes.py usr/lib/python3.14/dist-packages/cctbx/examples/analyze_adp.py usr/lib/python3.14/dist-packages/cctbx/examples/ccp4_map.py usr/lib/python3.14/dist-packages/cctbx/examples/change_hand_p31.py usr/lib/python3.14/dist-packages/cctbx/examples/convert_ccp4_symop_lib.py usr/lib/python3.14/dist-packages/cctbx/examples/cr2o3_consistency_checks.py usr/lib/python3.14/dist-packages/cctbx/examples/cr2o3_primitive_cell.py usr/lib/python3.14/dist-packages/cctbx/examples/exp_i_alpha_derivatives.py usr/lib/python3.14/dist-packages/cctbx/examples/f_model_example.py usr/lib/python3.14/dist-packages/cctbx/examples/fft_map_electron_density_around_atom.py usr/lib/python3.14/dist-packages/cctbx/examples/find_distances_using_cpp_objects.py usr/lib/python3.14/dist-packages/cctbx/examples/find_sys_abs_equiv_space_groups.py usr/lib/python3.14/dist-packages/cctbx/examples/g_exp_i_alpha_derivatives.py usr/lib/python3.14/dist-packages/cctbx/examples/g_exp_i_partial_derivatives.py usr/lib/python3.14/dist-packages/cctbx/examples/getting_started.py usr/lib/python3.14/dist-packages/cctbx/examples/hirshfeld_test.py usr/lib/python3.14/dist-packages/cctbx/examples/le_page_1982_vs_lebedev_2005.py usr/lib/python3.14/dist-packages/cctbx/examples/lebedev_2005_perturbation.py usr/lib/python3.14/dist-packages/cctbx/examples/list_non_principal_continuous_shifts.py usr/lib/python3.14/dist-packages/cctbx/examples/location_part.py usr/lib/python3.14/dist-packages/cctbx/examples/map_skewness.py usr/lib/python3.14/dist-packages/cctbx/examples/maximum_subgroups.py usr/lib/python3.14/dist-packages/cctbx/examples/miller_common_sets.py usr/lib/python3.14/dist-packages/cctbx/examples/miller_transform.py usr/lib/python3.14/dist-packages/cctbx/examples/neutron_structure_factors.py usr/lib/python3.14/dist-packages/cctbx/examples/phase_o_phrenia.py usr/lib/python3.14/dist-packages/cctbx/examples/quartz_structure.py usr/lib/python3.14/dist-packages/cctbx/examples/random_f_calc.py usr/lib/python3.14/dist-packages/cctbx/examples/random_puckers.py usr/lib/python3.14/dist-packages/cctbx/examples/reduced_cell_two_folds.py usr/lib/python3.14/dist-packages/cctbx/examples/site_symmetry_constraints.py usr/lib/python3.14/dist-packages/cctbx/examples/site_symmetry_table.py usr/lib/python3.14/dist-packages/cctbx/examples/space_group_matrices.py usr/lib/python3.14/dist-packages/cctbx/examples/space_subgroups.py usr/lib/python3.14/dist-packages/cctbx/examples/steve_collins.py usr/lib/python3.14/dist-packages/cctbx/examples/structure_factor_derivatives.py usr/lib/python3.14/dist-packages/cctbx/examples/structure_factor_derivatives_2.py usr/lib/python3.14/dist-packages/cctbx/examples/structure_factor_derivatives_3.py usr/lib/python3.14/dist-packages/cctbx/examples/structure_factor_derivatives_4.py usr/lib/python3.14/dist-packages/cctbx/examples/sub_group_graph.py usr/lib/python3.14/dist-packages/cctbx/examples/symops_530.py usr/lib/python3.14/dist-packages/cctbx/examples/trigonal_r_vs_tetragonal_i.py usr/lib/python3.14/dist-packages/cctbx/examples/tst_exp_i_alpha_derivatives.py usr/lib/python3.14/dist-packages/cctbx/examples/tst_g_exp_i_alpha_derivatives.py usr/lib/python3.14/dist-packages/cctbx/examples/tst_phase_o_phrenia.py usr/lib/python3.14/dist-packages/cctbx/examples/tst_space_subgroups.py usr/lib/python3.14/dist-packages/cctbx/examples/tst_structure_factor_derivatives.py usr/lib/python3.14/dist-packages/cctbx/examples/tst_structure_factor_derivatives_2.py usr/lib/python3.14/dist-packages/cctbx/examples/tst_structure_factor_derivatives_3.py usr/lib/python3.14/dist-packages/cctbx/examples/tst_structure_factor_derivatives_4.py usr/lib/python3.14/dist-packages/cctbx/examples/unit_cell_minimizers.py usr/lib/python3.14/dist-packages/cctbx/examples/unit_cell_refinement.py usr/lib/python3.14/dist-packages/cctbx/examples/view_fft_map.py usr/lib/python3.14/dist-packages/cctbx/examples/merging/ usr/lib/python3.14/dist-packages/cctbx/examples/merging/__init__.py usr/lib/python3.14/dist-packages/cctbx/examples/merging/data_subset.py usr/lib/python3.14/dist-packages/cctbx/examples/merging/data_utilities.py usr/lib/python3.14/dist-packages/cctbx/examples/merging/show_results.py usr/lib/python3.14/dist-packages/cctbx/examples/merging/sigma_correction.py usr/lib/python3.14/dist-packages/cctbx/examples/merging/task4.py usr/lib/python3.14/dist-packages/cctbx/examples/merging/test1.py usr/lib/python3.14/dist-packages/cctbx/examples/merging/test_cc_half.py usr/lib/python3.14/dist-packages/cctbx/examples/merging/test_levenberg_sparse.py usr/lib/python3.14/dist-packages/cctbx/examples/merging/tst_permutations.py usr/lib/python3.14/dist-packages/cctbx/examples/merging/samosa/ usr/lib/python3.14/dist-packages/cctbx/examples/merging/samosa/__init__.py usr/lib/python3.14/dist-packages/cctbx/examples/merging/samosa/join.py usr/lib/python3.14/dist-packages/cctbx/examples/merging/samosa/per_lattice_postrefinement.py usr/lib/python3.14/dist-packages/cctbx/examples/merging/samosa/scale.py usr/lib/python3.14/dist-packages/cctbx/examples/structure_factor_calculus/ usr/lib/python3.14/dist-packages/cctbx/examples/structure_factor_calculus/__init__.py usr/lib/python3.14/dist-packages/cctbx/examples/structure_factor_calculus/site_derivatives.py usr/lib/python3.14/dist-packages/cctbx/examples/structure_factor_calculus/sites_derivatives.py usr/lib/python3.14/dist-packages/cctbx/examples/structure_factor_calculus/sites_least_squares_derivatives.py usr/lib/python3.14/dist-packages/cctbx/examples/structure_factor_calculus/u_star_derivatives.py usr/lib/python3.14/dist-packages/cctbx/geometry/ usr/lib/python3.14/dist-packages/cctbx/geometry/__init__.py usr/lib/python3.14/dist-packages/cctbx/geometry_restraints/ usr/lib/python3.14/dist-packages/cctbx/geometry_restraints/__init__.py usr/lib/python3.14/dist-packages/cctbx/geometry_restraints/auto_linking_types.py usr/lib/python3.14/dist-packages/cctbx/geometry_restraints/base_geometry.py usr/lib/python3.14/dist-packages/cctbx/geometry_restraints/distance_least_squares.py usr/lib/python3.14/dist-packages/cctbx/geometry_restraints/energies.py usr/lib/python3.14/dist-packages/cctbx/geometry_restraints/flags.py usr/lib/python3.14/dist-packages/cctbx/geometry_restraints/lbfgs.py usr/lib/python3.14/dist-packages/cctbx/geometry_restraints/linking_class.py usr/lib/python3.14/dist-packages/cctbx/geometry_restraints/manager.py usr/lib/python3.14/dist-packages/cctbx/geometry_restraints/process_nonbonded_proxies.py usr/lib/python3.14/dist-packages/cctbx/geometry_restraints/standard_cif_links.py usr/lib/python3.14/dist-packages/cctbx/geometry_restraints/tst_angle_derivs.py usr/lib/python3.14/dist-packages/cctbx/geometry_restraints/tst_ext.py usr/lib/python3.14/dist-packages/cctbx/geometry_restraints/tst_motif.py usr/lib/python3.14/dist-packages/cctbx/geometry_restraints/tst_process_nonbonded_proxies.py usr/lib/python3.14/dist-packages/cctbx/geometry_restraints/tst_proxy_registry.py usr/lib/python3.14/dist-packages/cctbx/macro_mol/ usr/lib/python3.14/dist-packages/cctbx/macro_mol/__init__.py usr/lib/python3.14/dist-packages/cctbx/macro_mol/rotation_parameters.py usr/lib/python3.14/dist-packages/cctbx/maptbx/ usr/lib/python3.14/dist-packages/cctbx/maptbx/__init__.py usr/lib/python3.14/dist-packages/cctbx/maptbx/auto_sharpen.py usr/lib/python3.14/dist-packages/cctbx/maptbx/box.py usr/lib/python3.14/dist-packages/cctbx/maptbx/fsc_curve.py usr/lib/python3.14/dist-packages/cctbx/maptbx/map_symmetry.py usr/lib/python3.14/dist-packages/cctbx/maptbx/mask.py usr/lib/python3.14/dist-packages/cctbx/maptbx/mem.py usr/lib/python3.14/dist-packages/cctbx/maptbx/minimization.py usr/lib/python3.14/dist-packages/cctbx/maptbx/prepare_map_for_docking.py usr/lib/python3.14/dist-packages/cctbx/maptbx/prepare_map_for_refinement.py usr/lib/python3.14/dist-packages/cctbx/maptbx/qscore.py usr/lib/python3.14/dist-packages/cctbx/maptbx/real_space_refinement_simple.py usr/lib/python3.14/dist-packages/cctbx/maptbx/refine_scales_errors.py usr/lib/python3.14/dist-packages/cctbx/maptbx/refine_sharpening.py usr/lib/python3.14/dist-packages/cctbx/maptbx/resolution_from_map_and_model.py usr/lib/python3.14/dist-packages/cctbx/maptbx/segment_and_split_map.py usr/lib/python3.14/dist-packages/cctbx/maptbx/tst_asymmetric_map.py usr/lib/python3.14/dist-packages/cctbx/maptbx/tst_atom_curves.py usr/lib/python3.14/dist-packages/cctbx/maptbx/tst_atom_radius_as_central_peak_width.py usr/lib/python3.14/dist-packages/cctbx/maptbx/tst_bcr.py usr/lib/python3.14/dist-packages/cctbx/maptbx/tst_ccp.py usr/lib/python3.14/dist-packages/cctbx/maptbx/tst_get_percentile_cutoffs.py usr/lib/python3.14/dist-packages/cctbx/maptbx/tst_interpolation.py usr/lib/python3.14/dist-packages/cctbx/maptbx/tst_interpolation_2.py usr/lib/python3.14/dist-packages/cctbx/maptbx/tst_loft.py usr/lib/python3.14/dist-packages/cctbx/maptbx/tst_map_peak_3d_as_2d.py usr/lib/python3.14/dist-packages/cctbx/maptbx/tst_mask.py usr/lib/python3.14/dist-packages/cctbx/maptbx/tst_peak_volume_estimate.py usr/lib/python3.14/dist-packages/cctbx/maptbx/tst_qscore.py usr/lib/python3.14/dist-packages/cctbx/maptbx/tst_real_space_refinement_simple.py usr/lib/python3.14/dist-packages/cctbx/maptbx/tst_resolution_from_map_and_model.py usr/lib/python3.14/dist-packages/cctbx/maptbx/tst_target_and_gradients.py usr/lib/python3.14/dist-packages/cctbx/maptbx/bcr/ usr/lib/python3.14/dist-packages/cctbx/maptbx/bcr/__init__.py usr/lib/python3.14/dist-packages/cctbx/maptbx/bcr/bcr.py usr/lib/python3.14/dist-packages/cctbx/maptbx/bcr/compute_tables.py usr/lib/python3.14/dist-packages/cctbx/maptbx/bcr/qmap.py usr/lib/python3.14/dist-packages/cctbx/maptbx/bcr/tst_adp_refine.py usr/lib/python3.14/dist-packages/cctbx/maptbx/bcr/tst_example.py usr/lib/python3.14/dist-packages/cctbx/maptbx/bcr/tst_qmap_02.py usr/lib/python3.14/dist-packages/cctbx/maptbx/bcr/tst_table.py usr/lib/python3.14/dist-packages/cctbx/maptbx/bcr/tst_two_atoms.py usr/lib/python3.14/dist-packages/cctbx/maptbx/bcr/tst_vrm.py usr/lib/python3.14/dist-packages/cctbx/maptbx/bcr/tst_vrm2.py usr/lib/python3.14/dist-packages/cctbx/masks/ usr/lib/python3.14/dist-packages/cctbx/masks/__init__.py usr/lib/python3.14/dist-packages/cctbx/merging/ usr/lib/python3.14/dist-packages/cctbx/merging/__init__.py usr/lib/python3.14/dist-packages/cctbx/merging/brehm_diederichs.py usr/lib/python3.14/dist-packages/cctbx/miller/ usr/lib/python3.14/dist-packages/cctbx/miller/__init__.py usr/lib/python3.14/dist-packages/cctbx/miller/display.py usr/lib/python3.14/dist-packages/cctbx/miller/reindexing.py usr/lib/python3.14/dist-packages/cctbx/miller/tst_map_to_asu_isym.py usr/lib/python3.14/dist-packages/cctbx/miller/tst_reindexing.py usr/lib/python3.14/dist-packages/cctbx/neutron/ usr/lib/python3.14/dist-packages/cctbx/neutron/__init__.py usr/lib/python3.14/dist-packages/cctbx/omz/ usr/lib/python3.14/dist-packages/cctbx/omz/__init__.py usr/lib/python3.14/dist-packages/cctbx/omz/bfgs.py usr/lib/python3.14/dist-packages/cctbx/omz/cif_refine.py usr/lib/python3.14/dist-packages/cctbx/omz/cod_refine.py usr/lib/python3.14/dist-packages/cctbx/omz/cod_select_and_pickle.py usr/lib/python3.14/dist-packages/cctbx/omz/dev.py usr/lib/python3.14/dist-packages/cctbx/omz/eval_iso_vs_refined.py usr/lib/python3.14/dist-packages/cctbx/omz/pdb_dev.py usr/lib/python3.14/dist-packages/cctbx/omz/tardy_adaptor.py usr/lib/python3.14/dist-packages/cctbx/omz/tst_bfgs.py usr/lib/python3.14/dist-packages/cctbx/omz/tst_dev.py usr/lib/python3.14/dist-packages/cctbx/regression/ usr/lib/python3.14/dist-packages/cctbx/regression/__init__.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_adp_aniso_restraints.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_adp_constraints.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_adp_constraints_cartesian.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_amplitude_normalisation.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_change_basis.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_connectivity.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_connectivity_allsym.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_coordination_sequences.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_create_models_or_maps.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_crystal.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_crystal_asu_clusters.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_crystal_close_packing.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_diffuse.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_direct_scaling.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_direct_space_asu.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_emma.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_expand_to_p1.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_f_model.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_fast_nv1995.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_fcalc_fft_stability.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_find_best_cell.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_fourier_transform_real_part_at_x.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_french_wilson.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_geometry_restraints.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_geometry_restraints_2.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_geometry_restraints_lbfgs.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_grm_modifications.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_grm_modifications_rm.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_grm_pickling.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_grouped_data.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_itvb_2001_table_a1427_hall_symbols.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_krivy_gruber.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_loc_res.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_map_is_periodic.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_map_weights_for_symmetry_summation.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_maptbx_box.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_maptbx_mask.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_maptbx_structure_factors.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_math_module.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_mem.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_mem_2.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_miller.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_miller_data_manipulation.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_miller_double_step_filtration.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_miller_fft_map.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_miller_lookup_utils.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_miller_merge_equivalents.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_miller_statistics.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_niggli_reduction_cpp.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_pair_asu_table.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_pointgroup_tools.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_prepare_map_for_docking.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_r_free_utils.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_reciprocal_space_asu.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_refine_xray_curvs.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_reflection_statistics.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_sampled_model_density.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_sf_low_res_accuracy.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_sgtbx.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_sgtbx_denominators.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_sgtbx_harker.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_sgtbx_lattice_symmetry.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_sgtbx_site_constraints.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_sgtbx_special_op_simplifier.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_sgtbx_subgroups.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_sgtbx_tidy_pickling.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_show_cosets.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_space_group_type_tidy_cb_op_t.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_sphericity.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_statistics_graphs.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_triplet_generator.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_twin_target.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_wavelength_units.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_web_change_basis.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_weighting_schemes.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_wilson_plot.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_xray.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_xray_derivatives.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_xray_fast_gradients.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_xray_minimization.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_xray_minimization_failure.py usr/lib/python3.14/dist-packages/cctbx/regression/tst_xray_target_functors.py usr/lib/python3.14/dist-packages/cctbx/sgtbx/ usr/lib/python3.14/dist-packages/cctbx/sgtbx/__init__.py usr/lib/python3.14/dist-packages/cctbx/sgtbx/bravais_types.py usr/lib/python3.14/dist-packages/cctbx/sgtbx/cosets.py usr/lib/python3.14/dist-packages/cctbx/sgtbx/harker.py usr/lib/python3.14/dist-packages/cctbx/sgtbx/lattice_symmetry.py usr/lib/python3.14/dist-packages/cctbx/sgtbx/literal_description.py usr/lib/python3.14/dist-packages/cctbx/sgtbx/plane_groups.py usr/lib/python3.14/dist-packages/cctbx/sgtbx/pointgroup_tools.py usr/lib/python3.14/dist-packages/cctbx/sgtbx/rational_matrices_point_groups.py usr/lib/python3.14/dist-packages/cctbx/sgtbx/reticular_pg_tools.py usr/lib/python3.14/dist-packages/cctbx/sgtbx/reticular_twin_laws.py usr/lib/python3.14/dist-packages/cctbx/sgtbx/show_cosets.py usr/lib/python3.14/dist-packages/cctbx/sgtbx/sub_lattice_tools.py usr/lib/python3.14/dist-packages/cctbx/sgtbx/subgroups.py usr/lib/python3.14/dist-packages/cctbx/sgtbx/symbol_confidence.py usr/lib/python3.14/dist-packages/cctbx/sgtbx/sys_abs_equiv.py usr/lib/python3.14/dist-packages/cctbx/sgtbx/direct_space_asu/ usr/lib/python3.14/dist-packages/cctbx/sgtbx/direct_space_asu/__init__.py usr/lib/python3.14/dist-packages/cctbx/sgtbx/direct_space_asu/check_redundancies.py usr/lib/python3.14/dist-packages/cctbx/sgtbx/direct_space_asu/cut_plane.py usr/lib/python3.14/dist-packages/cctbx/sgtbx/direct_space_asu/facet_analysis.py usr/lib/python3.14/dist-packages/cctbx/sgtbx/direct_space_asu/plane_group_reference_table.py usr/lib/python3.14/dist-packages/cctbx/sgtbx/direct_space_asu/reference_table.py usr/lib/python3.14/dist-packages/cctbx/sgtbx/direct_space_asu/short_cuts.py usr/lib/python3.14/dist-packages/cctbx/sgtbx/direct_space_asu/proto/ usr/lib/python3.14/dist-packages/cctbx/sgtbx/direct_space_asu/proto/__init__.py usr/lib/python3.14/dist-packages/cctbx/sgtbx/direct_space_asu/proto/generate_cpp_asu_table.py usr/lib/python3.14/dist-packages/cctbx/sgtbx/direct_space_asu/proto/tst_asu.py usr/lib/python3.14/dist-packages/cctbx/source_generators/ usr/lib/python3.14/dist-packages/cctbx/source_generators/__init__.py usr/lib/python3.14/dist-packages/cctbx/source_generators/flex_fwd_h.py usr/lib/python3.14/dist-packages/cctbx/source_generators/eltbx/ usr/lib/python3.14/dist-packages/cctbx/source_generators/eltbx/__init__.py usr/lib/python3.14/dist-packages/cctbx/source_generators/eltbx/generate_henke_cpp.py usr/lib/python3.14/dist-packages/cctbx/source_generators/eltbx/generate_sasaki_cpp.py usr/lib/python3.14/dist-packages/cctbx/uctbx/ usr/lib/python3.14/dist-packages/cctbx/uctbx/__init__.py usr/lib/python3.14/dist-packages/cctbx/uctbx/gruber_1973.py usr/lib/python3.14/dist-packages/cctbx/uctbx/gruber_1973_table_1.py 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usr/lib/python3.14/dist-packages/iotbx/cif/geometry.py usr/lib/python3.14/dist-packages/iotbx/cif/model.py usr/lib/python3.14/dist-packages/iotbx/cif/restraint_file_merge.py usr/lib/python3.14/dist-packages/iotbx/cif/restraints.py usr/lib/python3.14/dist-packages/iotbx/cif/validation.py usr/lib/python3.14/dist-packages/iotbx/cns/ usr/lib/python3.14/dist-packages/iotbx/cns/__init__.py usr/lib/python3.14/dist-packages/iotbx/cns/crystal_symmetry_from_inp.py usr/lib/python3.14/dist-packages/iotbx/cns/crystal_symmetry_from_sdb.py usr/lib/python3.14/dist-packages/iotbx/cns/crystal_symmetry_utils.py usr/lib/python3.14/dist-packages/iotbx/cns/index_fobs_sigma_reader.py usr/lib/python3.14/dist-packages/iotbx/cns/miller_array.py usr/lib/python3.14/dist-packages/iotbx/cns/pdb_remarks.py usr/lib/python3.14/dist-packages/iotbx/cns/reflection_reader.py usr/lib/python3.14/dist-packages/iotbx/cns/sdb_reader.py usr/lib/python3.14/dist-packages/iotbx/cns/sdb_writer.py usr/lib/python3.14/dist-packages/iotbx/cns/space_group_symbols.py usr/lib/python3.14/dist-packages/iotbx/cns/tst_cns.py usr/lib/python3.14/dist-packages/iotbx/cns/xray_structure.py usr/lib/python3.14/dist-packages/iotbx/command_line/ usr/lib/python3.14/dist-packages/iotbx/command_line/__init__.py usr/lib/python3.14/dist-packages/iotbx/command_line/biomt_reconstruction.py usr/lib/python3.14/dist-packages/iotbx/command_line/blast_pdb.py usr/lib/python3.14/dist-packages/iotbx/command_line/build_phil_cache.py usr/lib/python3.14/dist-packages/iotbx/command_line/cbf_read.py usr/lib/python3.14/dist-packages/iotbx/command_line/cif.as_miller_arrays.py usr/lib/python3.14/dist-packages/iotbx/command_line/cif.as_xray_structure.py usr/lib/python3.14/dist-packages/iotbx/command_line/cif.validate.py usr/lib/python3.14/dist-packages/iotbx/command_line/cif_as_pdb.py usr/lib/python3.14/dist-packages/iotbx/command_line/cns.reflection_reader.py usr/lib/python3.14/dist-packages/iotbx/command_line/cns.sdb_reader.py usr/lib/python3.14/dist-packages/iotbx/command_line/cns.transfer_crystal_symmetry.py usr/lib/python3.14/dist-packages/iotbx/command_line/cns_as_mtz.py usr/lib/python3.14/dist-packages/iotbx/command_line/crystal_symmetry_from_any.py usr/lib/python3.14/dist-packages/iotbx/command_line/csv_as_mtz.py usr/lib/python3.14/dist-packages/iotbx/command_line/dano_as_amplitudes.py usr/lib/python3.14/dist-packages/iotbx/command_line/detector_image_as_png.py usr/lib/python3.14/dist-packages/iotbx/command_line/distance_least_squares.py usr/lib/python3.14/dist-packages/iotbx/command_line/dtrek.to_cns.py usr/lib/python3.14/dist-packages/iotbx/command_line/effective_resolution.py usr/lib/python3.14/dist-packages/iotbx/command_line/emma.py usr/lib/python3.14/dist-packages/iotbx/command_line/explore_metric_symmetry.py usr/lib/python3.14/dist-packages/iotbx/command_line/export_scalepack_unmerged.py usr/lib/python3.14/dist-packages/iotbx/command_line/file_reader.py usr/lib/python3.14/dist-packages/iotbx/command_line/flip_symmetric_amino_acids.py usr/lib/python3.14/dist-packages/iotbx/command_line/french_wilson.py usr/lib/python3.14/dist-packages/iotbx/command_line/get_pubmed_citation.py usr/lib/python3.14/dist-packages/iotbx/command_line/lattice_symmetry.py usr/lib/python3.14/dist-packages/iotbx/command_line/merging_statistics.py usr/lib/python3.14/dist-packages/iotbx/command_line/mtrix_reconstruction.py usr/lib/python3.14/dist-packages/iotbx/command_line/mtz.dump.py usr/lib/python3.14/dist-packages/iotbx/command_line/mtz_as_cif.py usr/lib/python3.14/dist-packages/iotbx/command_line/patterson_map.py usr/lib/python3.14/dist-packages/iotbx/command_line/pdb.as_xray_structure.py usr/lib/python3.14/dist-packages/iotbx/command_line/pdb.b_factor_stats.py usr/lib/python3.14/dist-packages/iotbx/command_line/pdb.box_around_molecule.py usr/lib/python3.14/dist-packages/iotbx/command_line/pdb.hierarchy.py usr/lib/python3.14/dist-packages/iotbx/command_line/pdb.insert_scale_records.py usr/lib/python3.14/dist-packages/iotbx/command_line/pdb.join_fragment_files.py usr/lib/python3.14/dist-packages/iotbx/command_line/pdb.link_as_geometry_restraints_edits.py usr/lib/python3.14/dist-packages/iotbx/command_line/pdb.print_sequence.py usr/lib/python3.14/dist-packages/iotbx/command_line/pdb.superpose_atoms_by_name.py usr/lib/python3.14/dist-packages/iotbx/command_line/pdb.superpose_centers_of_mass.py usr/lib/python3.14/dist-packages/iotbx/command_line/pdb_add_conformations.py usr/lib/python3.14/dist-packages/iotbx/command_line/pdb_as_cif.py usr/lib/python3.14/dist-packages/iotbx/command_line/pdb_as_fasta.py usr/lib/python3.14/dist-packages/iotbx/command_line/pdb_cif_conversion.py usr/lib/python3.14/dist-packages/iotbx/command_line/pdb_get_citation.py usr/lib/python3.14/dist-packages/iotbx/command_line/pdb_labels_comparison.py usr/lib/python3.14/dist-packages/iotbx/command_line/pdb_labels_diff.py usr/lib/python3.14/dist-packages/iotbx/command_line/pdb_remediator.py usr/lib/python3.14/dist-packages/iotbx/command_line/pdb_show_connectivity.py usr/lib/python3.14/dist-packages/iotbx/command_line/pdb_split_models.py usr/lib/python3.14/dist-packages/iotbx/command_line/phil.py usr/lib/python3.14/dist-packages/iotbx/command_line/poscar_as_xray_structure.py usr/lib/python3.14/dist-packages/iotbx/command_line/r_free_flags_accumulation.py usr/lib/python3.14/dist-packages/iotbx/command_line/r_free_flags_as_cns.py usr/lib/python3.14/dist-packages/iotbx/command_line/r_free_flags_completion_simple.py usr/lib/python3.14/dist-packages/iotbx/command_line/reflection_file_converter.py usr/lib/python3.14/dist-packages/iotbx/command_line/reflection_file_editor.py usr/lib/python3.14/dist-packages/iotbx/command_line/reflection_file_reader.py usr/lib/python3.14/dist-packages/iotbx/command_line/reflection_statistics.py usr/lib/python3.14/dist-packages/iotbx/command_line/reindex.py usr/lib/python3.14/dist-packages/iotbx/command_line/shelx.as_cif.py usr/lib/python3.14/dist-packages/iotbx/command_line/shelx.as_xray_structure.py usr/lib/python3.14/dist-packages/iotbx/command_line/shelx.dump_as_python.py usr/lib/python3.14/dist-packages/iotbx/command_line/show_distances.py usr/lib/python3.14/dist-packages/iotbx/command_line/show_systematic_absences.py usr/lib/python3.14/dist-packages/iotbx/command_line/simple_map_coefficients.py usr/lib/python3.14/dist-packages/iotbx/command_line/sort_atoms.py usr/lib/python3.14/dist-packages/iotbx/command_line/split_data_cif.py usr/lib/python3.14/dist-packages/iotbx/command_line/symmetry_search.py usr/lib/python3.14/dist-packages/iotbx/command_line/unique_with_biomt.py usr/lib/python3.14/dist-packages/iotbx/command_line/xplor.map.show_summary.py usr/lib/python3.14/dist-packages/iotbx/data_manager/ usr/lib/python3.14/dist-packages/iotbx/data_manager/__init__.py usr/lib/python3.14/dist-packages/iotbx/data_manager/common.py usr/lib/python3.14/dist-packages/iotbx/data_manager/map_coefficients.py usr/lib/python3.14/dist-packages/iotbx/data_manager/miller_array.py usr/lib/python3.14/dist-packages/iotbx/data_manager/model.py usr/lib/python3.14/dist-packages/iotbx/data_manager/ncs_spec.py usr/lib/python3.14/dist-packages/iotbx/data_manager/phil.py usr/lib/python3.14/dist-packages/iotbx/data_manager/real_map.py usr/lib/python3.14/dist-packages/iotbx/data_manager/restraint.py usr/lib/python3.14/dist-packages/iotbx/data_manager/sequence.py usr/lib/python3.14/dist-packages/iotbx/detectors/ usr/lib/python3.14/dist-packages/iotbx/detectors/__init__.py usr/lib/python3.14/dist-packages/iotbx/detectors/active_area_filter.py usr/lib/python3.14/dist-packages/iotbx/detectors/adsc.py usr/lib/python3.14/dist-packages/iotbx/detectors/adsc_minicbf.py usr/lib/python3.14/dist-packages/iotbx/detectors/adsc_module.py usr/lib/python3.14/dist-packages/iotbx/detectors/beam_center_convention.py usr/lib/python3.14/dist-packages/iotbx/detectors/bruker.py usr/lib/python3.14/dist-packages/iotbx/detectors/cbf.py usr/lib/python3.14/dist-packages/iotbx/detectors/cspad_detector_formats.py usr/lib/python3.14/dist-packages/iotbx/detectors/detectorbase.py usr/lib/python3.14/dist-packages/iotbx/detectors/dtrek.py usr/lib/python3.14/dist-packages/iotbx/detectors/edf.py usr/lib/python3.14/dist-packages/iotbx/detectors/eiger.py usr/lib/python3.14/dist-packages/iotbx/detectors/eiger_minicbf.py usr/lib/python3.14/dist-packages/iotbx/detectors/generic_detector.py usr/lib/python3.14/dist-packages/iotbx/detectors/hamamatsu.py usr/lib/python3.14/dist-packages/iotbx/detectors/image_from_http_request.py usr/lib/python3.14/dist-packages/iotbx/detectors/macscience.py usr/lib/python3.14/dist-packages/iotbx/detectors/mar.py usr/lib/python3.14/dist-packages/iotbx/detectors/marIP.py usr/lib/python3.14/dist-packages/iotbx/detectors/noir.py usr/lib/python3.14/dist-packages/iotbx/detectors/npy.py usr/lib/python3.14/dist-packages/iotbx/detectors/pilatus_minicbf.py usr/lib/python3.14/dist-packages/iotbx/detectors/pilatus_slice.py usr/lib/python3.14/dist-packages/iotbx/detectors/raxis.py usr/lib/python3.14/dist-packages/iotbx/detectors/raxis_nonsquare.py usr/lib/python3.14/dist-packages/iotbx/detectors/raxisbase.py usr/lib/python3.14/dist-packages/iotbx/detectors/saturn.py usr/lib/python3.14/dist-packages/iotbx/detectors/test_mar.py usr/lib/python3.14/dist-packages/iotbx/detectors/test_raxis2.py usr/lib/python3.14/dist-packages/iotbx/detectors/tst_adsc.py usr/lib/python3.14/dist-packages/iotbx/detectors/tst_cbf_comp_read_meth.py usr/lib/python3.14/dist-packages/iotbx/detectors/tst_debug_write.py usr/lib/python3.14/dist-packages/iotbx/detectors/tst_detectors.py usr/lib/python3.14/dist-packages/iotbx/detectors/tst_py_cbf.py usr/lib/python3.14/dist-packages/iotbx/detectors/url_support.py usr/lib/python3.14/dist-packages/iotbx/detectors/context/ usr/lib/python3.14/dist-packages/iotbx/detectors/context/__init__.py usr/lib/python3.14/dist-packages/iotbx/detectors/context/camera_convention.py usr/lib/python3.14/dist-packages/iotbx/detectors/context/config_detector.py usr/lib/python3.14/dist-packages/iotbx/detectors/context/endstation.py usr/lib/python3.14/dist-packages/iotbx/detectors/context/endstation_max_iv_trial.py usr/lib/python3.14/dist-packages/iotbx/detectors/context/spot_xy_convention.py usr/lib/python3.14/dist-packages/iotbx/detectors/util/ usr/lib/python3.14/dist-packages/iotbx/detectors/util/__init__.py usr/lib/python3.14/dist-packages/iotbx/detectors/util/filters.py usr/lib/python3.14/dist-packages/iotbx/dsn6/ usr/lib/python3.14/dist-packages/iotbx/dsn6/__init__.py usr/lib/python3.14/dist-packages/iotbx/dsn6/tst.py usr/lib/python3.14/dist-packages/iotbx/dtrek/ usr/lib/python3.14/dist-packages/iotbx/dtrek/__init__.py usr/lib/python3.14/dist-packages/iotbx/dtrek/crystal_symmetry_from_ref.py usr/lib/python3.14/dist-packages/iotbx/dtrek/dtrek_symmetry_dict.py usr/lib/python3.14/dist-packages/iotbx/dtrek/reflnlist_reader.py usr/lib/python3.14/dist-packages/iotbx/examples/ usr/lib/python3.14/dist-packages/iotbx/examples/__init__.py usr/lib/python3.14/dist-packages/iotbx/examples/direct_methods_light.py usr/lib/python3.14/dist-packages/iotbx/examples/libtbx_phil_examples.py usr/lib/python3.14/dist-packages/iotbx/examples/mtz_convert_free_to_work.py usr/lib/python3.14/dist-packages/iotbx/examples/mtz_free_flipper.py usr/lib/python3.14/dist-packages/iotbx/examples/pdb_hierarchy.py usr/lib/python3.14/dist-packages/iotbx/examples/pdb_shake.py usr/lib/python3.14/dist-packages/iotbx/examples/pdb_split_chains.py usr/lib/python3.14/dist-packages/iotbx/examples/pdb_symmetry_copies.py usr/lib/python3.14/dist-packages/iotbx/examples/pdb_tardy_conf_sampling_simple.py usr/lib/python3.14/dist-packages/iotbx/examples/pdb_to_map_simple.py usr/lib/python3.14/dist-packages/iotbx/examples/pdbx_mmcif_tutorial.py usr/lib/python3.14/dist-packages/iotbx/examples/prepare_model_for_rsr.py usr/lib/python3.14/dist-packages/iotbx/examples/recalculate_phenix_refine_r_factors.py usr/lib/python3.14/dist-packages/iotbx/examples/shelx_latt_sym_to_space_group_symbol.py usr/lib/python3.14/dist-packages/iotbx/examples/tst_mtz_free_flipper.py usr/lib/python3.14/dist-packages/iotbx/examples/pdb_truncate_to_ala/ usr/lib/python3.14/dist-packages/iotbx/examples/pdb_truncate_to_ala/__init__.py usr/lib/python3.14/dist-packages/iotbx/examples/pdb_truncate_to_ala/tst.py usr/lib/python3.14/dist-packages/iotbx/examples/pdb_truncate_to_ala/v0_getting_started.py usr/lib/python3.14/dist-packages/iotbx/examples/pdb_truncate_to_ala/v1_loop_over_atoms.py usr/lib/python3.14/dist-packages/iotbx/examples/pdb_truncate_to_ala/v2_simple.py usr/lib/python3.14/dist-packages/iotbx/examples/pdb_truncate_to_ala/v3_better.py usr/lib/python3.14/dist-packages/iotbx/examples/pdb_truncate_to_ala/v4_with_bells_and_whistles.py usr/lib/python3.14/dist-packages/iotbx/fullprof/ usr/lib/python3.14/dist-packages/iotbx/fullprof/__init__.py usr/lib/python3.14/dist-packages/iotbx/fullprof/read_pcr.py usr/lib/python3.14/dist-packages/iotbx/fullprof/write_pcr.py usr/lib/python3.14/dist-packages/iotbx/gui_tools/ usr/lib/python3.14/dist-packages/iotbx/gui_tools/__init__.py usr/lib/python3.14/dist-packages/iotbx/gui_tools/cif_conversions.py usr/lib/python3.14/dist-packages/iotbx/gui_tools/import_data_and_flags.py usr/lib/python3.14/dist-packages/iotbx/gui_tools/models.py usr/lib/python3.14/dist-packages/iotbx/gui_tools/reflections.py usr/lib/python3.14/dist-packages/iotbx/gui_tools/tst.py usr/lib/python3.14/dist-packages/iotbx/kriber/ usr/lib/python3.14/dist-packages/iotbx/kriber/__init__.py usr/lib/python3.14/dist-packages/iotbx/kriber/strudat.py usr/lib/python3.14/dist-packages/iotbx/kriber/tst_strudat.py usr/lib/python3.14/dist-packages/iotbx/mrcfile/ usr/lib/python3.14/dist-packages/iotbx/mrcfile/__init__.py usr/lib/python3.14/dist-packages/iotbx/mrcfile/crystal_symmetry_from_ccp4_map.py usr/lib/python3.14/dist-packages/iotbx/mtz/ usr/lib/python3.14/dist-packages/iotbx/mtz/__init__.py usr/lib/python3.14/dist-packages/iotbx/mtz/crystal_symmetry_from_mtz.py usr/lib/python3.14/dist-packages/iotbx/mtz/extract_from_symmetry_lib.py usr/lib/python3.14/dist-packages/iotbx/mtz/tst.py usr/lib/python3.14/dist-packages/iotbx/mtz/tst_dano.py usr/lib/python3.14/dist-packages/iotbx/mtz/tst_ext.py usr/lib/python3.14/dist-packages/iotbx/mtz/tst_extract_from_symmetry_lib.py usr/lib/python3.14/dist-packages/iotbx/mtz/tst_miller_dict.py usr/lib/python3.14/dist-packages/iotbx/mtz/tst_unmerged.py usr/lib/python3.14/dist-packages/iotbx/ncs/ usr/lib/python3.14/dist-packages/iotbx/ncs/__init__.py usr/lib/python3.14/dist-packages/iotbx/pdb/ usr/lib/python3.14/dist-packages/iotbx/pdb/__init__.py usr/lib/python3.14/dist-packages/iotbx/pdb/aa_utils.py usr/lib/python3.14/dist-packages/iotbx/pdb/amino_acid_codes.py usr/lib/python3.14/dist-packages/iotbx/pdb/atom_name_interpretation.py usr/lib/python3.14/dist-packages/iotbx/pdb/atom_selection.py usr/lib/python3.14/dist-packages/iotbx/pdb/cryst1_interpretation.py usr/lib/python3.14/dist-packages/iotbx/pdb/crystal_symmetry_from_pdb.py usr/lib/python3.14/dist-packages/iotbx/pdb/download.py usr/lib/python3.14/dist-packages/iotbx/pdb/experiment_type.py usr/lib/python3.14/dist-packages/iotbx/pdb/extract_rfactors_resolutions_sigma.py usr/lib/python3.14/dist-packages/iotbx/pdb/fetch.py usr/lib/python3.14/dist-packages/iotbx/pdb/forward_compatible_pdb_cif_conversion.py usr/lib/python3.14/dist-packages/iotbx/pdb/hierarchy.py usr/lib/python3.14/dist-packages/iotbx/pdb/hybrid_36.py usr/lib/python3.14/dist-packages/iotbx/pdb/misc_records_output.py usr/lib/python3.14/dist-packages/iotbx/pdb/mmcif.py usr/lib/python3.14/dist-packages/iotbx/pdb/modified_aa_names.py usr/lib/python3.14/dist-packages/iotbx/pdb/modified_rna_dna_names.py usr/lib/python3.14/dist-packages/iotbx/pdb/nucleic_acid_codes.py usr/lib/python3.14/dist-packages/iotbx/pdb/pdb_v3_cif_conversion.py usr/lib/python3.14/dist-packages/iotbx/pdb/pdbe.py usr/lib/python3.14/dist-packages/iotbx/pdb/rcsb.py usr/lib/python3.14/dist-packages/iotbx/pdb/records.py usr/lib/python3.14/dist-packages/iotbx/pdb/remark_290_interpretation.py usr/lib/python3.14/dist-packages/iotbx/pdb/remark_2_interpretation.py usr/lib/python3.14/dist-packages/iotbx/pdb/remark_3_interpretation.py usr/lib/python3.14/dist-packages/iotbx/pdb/rna_dna_detection.py usr/lib/python3.14/dist-packages/iotbx/pdb/secondary_structure.py usr/lib/python3.14/dist-packages/iotbx/pdb/tst_atom_name_interpretation.py usr/lib/python3.14/dist-packages/iotbx/pdb/tst_atom_selection.py usr/lib/python3.14/dist-packages/iotbx/pdb/tst_atom_selection_string.py usr/lib/python3.14/dist-packages/iotbx/pdb/tst_ext.py usr/lib/python3.14/dist-packages/iotbx/pdb/tst_extract_rfactors_resolutions_sigma.py usr/lib/python3.14/dist-packages/iotbx/pdb/tst_hierarchy.py usr/lib/python3.14/dist-packages/iotbx/pdb/tst_hierarchy_atom_sort.py usr/lib/python3.14/dist-packages/iotbx/pdb/tst_hierarchy_flip_symmetric.py usr/lib/python3.14/dist-packages/iotbx/pdb/tst_hierarchy_flip_symmetric_2.py usr/lib/python3.14/dist-packages/iotbx/pdb/tst_mmcif.py usr/lib/python3.14/dist-packages/iotbx/pdb/tst_mmcif_hierarchy.py usr/lib/python3.14/dist-packages/iotbx/pdb/tst_mmcif_hierarchy_2.py usr/lib/python3.14/dist-packages/iotbx/pdb/tst_pdb.py usr/lib/python3.14/dist-packages/iotbx/pdb/tst_read_mtrix_records_from_cif.py usr/lib/python3.14/dist-packages/iotbx/pdb/tst_rna_dna_atom_names.py usr/lib/python3.14/dist-packages/iotbx/pdb/tst_secondary_structure.py usr/lib/python3.14/dist-packages/iotbx/pdb/tst_secondary_structure_2.py usr/lib/python3.14/dist-packages/iotbx/pdb/tst_tls.py usr/lib/python3.14/dist-packages/iotbx/pdb/tst_utils.py usr/lib/python3.14/dist-packages/iotbx/pdb/utils.py usr/lib/python3.14/dist-packages/iotbx/pdb/web_service_api.py usr/lib/python3.14/dist-packages/iotbx/pdb/xray_structure.py usr/lib/python3.14/dist-packages/iotbx/pdb/remediation/ usr/lib/python3.14/dist-packages/iotbx/pdb/remediation/__init__.py usr/lib/python3.14/dist-packages/iotbx/pdb/remediation/remediator.py usr/lib/python3.14/dist-packages/iotbx/pdb/remediation/tst_remediator.py usr/lib/python3.14/dist-packages/iotbx/programs/ usr/lib/python3.14/dist-packages/iotbx/programs/__init__.py usr/lib/python3.14/dist-packages/iotbx/programs/box_around_molecule.py usr/lib/python3.14/dist-packages/iotbx/programs/split_data_cif.py usr/lib/python3.14/dist-packages/iotbx/programs/unique_with_biomt.py usr/lib/python3.14/dist-packages/iotbx/regression/ usr/lib/python3.14/dist-packages/iotbx/regression/__init__.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_add_conformations.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_all_chain_ids.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_atom_selections_10k.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_bioinformatics.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_box_around_molecule.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_cif_1.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_cif_as_pdb_1atom.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_cli_parser.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_crystal_symmetry_from_any.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_csv_utils.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_data_manager.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_data_plots.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_examples.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_export_scalepack_unmerged.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_extract_xtal_data.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_fetch.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_file_reader.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_generate_n_char_string.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_group_rounding.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_hierarchy_altlocs.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_hierarchy_copy_select.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_hierarchy_forward_compatible_pdb.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_hierarchy_id_str.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_hierarchy_long_chain_ids_1.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_hierarchy_long_resname_1.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_hierarchy_long_resname_2.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_hierarchy_long_resname_3.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_hierarchy_long_resname_4.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_hierarchy_merge_atoms_at_end_to_residues.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_hierarchy_occupancies_rounding.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_hierarchy_pdb_v3.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_lattice_symmetry.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_map_manager.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_map_manager_2.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_map_manager_wrapping.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_map_model_manager.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_map_model_manager_2.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_map_model_manager_3.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_map_model_manager_4.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_map_model_manager_9_remove_origin_shift_and_unit_cell_crystal_symmetry.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_map_model_manager_9_remove_origin_shift_and_unit_cell_crystal_symmetry_cif.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_map_model_manager_call_consistency.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_map_model_manager_cif.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_map_model_manager_external_sharpening_7.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_map_model_manager_half_map_sharpening_6.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_map_model_manager_local_resolution_10.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_map_model_manager_model_sharpening_5.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_map_model_manager_model_sharpening_5_cif.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_map_model_manager_tls_from_map_8.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_map_tools.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_merging_statistics.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_miller_sort_asu.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_mmcif_input.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_mmcif_multimodel.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_mmcif_segids.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_mmcif_to_from_hierarchy.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_mrc_io.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_mtz_as_cif.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_patterson.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_pdb_as_cif.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_pdb_as_fasta.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_pdb_cif_cells.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_pdb_cif_inputs.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_pdb_link_records.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_pdbx_mmcif_tutorial.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_phases.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_phil.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_poscar.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_reflection_file_editor.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_reflection_file_reader.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_reflection_file_utils.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_reflection_statistics.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_reindex.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_restraints_merge.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_selected_hierarchy_flip.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_show_systematic_absences.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_simple_map_coefficients.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_simple_parser.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_sort_atoms.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_split_data_cif.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_split_models.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_symmetry.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_wildcard.py usr/lib/python3.14/dist-packages/iotbx/regression/tst_xray_scale.py usr/lib/python3.14/dist-packages/iotbx/regression/utils.py usr/lib/python3.14/dist-packages/iotbx/regression/ncs/ usr/lib/python3.14/dist-packages/iotbx/regression/ncs/__init__.py usr/lib/python3.14/dist-packages/iotbx/regression/ncs/tst_mmcif_biomt_reduction_output.py usr/lib/python3.14/dist-packages/iotbx/regression/ncs/tst_mtrix_biomt_cmdl.py usr/lib/python3.14/dist-packages/iotbx/regression/ncs/tst_ncs.py usr/lib/python3.14/dist-packages/iotbx/regression/ncs/tst_ncs_groups_preprocessing.py usr/lib/python3.14/dist-packages/iotbx/regression/ncs/tst_ncs_input.py usr/lib/python3.14/dist-packages/iotbx/regression/ncs/tst_ncs_reordered_chains.py usr/lib/python3.14/dist-packages/iotbx/regression/ncs/tst_ncs_search_broken_chain.py usr/lib/python3.14/dist-packages/iotbx/regression/ncs/tst_ncs_search_ligs.py usr/lib/python3.14/dist-packages/iotbx/regression/ncs/tst_ncs_search_shortcut_1.py usr/lib/python3.14/dist-packages/iotbx/regression/ncs/tst_ncs_user_selections.py usr/lib/python3.14/dist-packages/iotbx/regression/ncs/tst_ncs_without_validation.py usr/lib/python3.14/dist-packages/iotbx/scalepack/ usr/lib/python3.14/dist-packages/iotbx/scalepack/__init__.py usr/lib/python3.14/dist-packages/iotbx/scalepack/crystal_symmetry_from_hkl.py usr/lib/python3.14/dist-packages/iotbx/scalepack/merge.py usr/lib/python3.14/dist-packages/iotbx/scalepack/no_merge_original_index.py usr/lib/python3.14/dist-packages/iotbx/scalepack/space_group_dictionary.py usr/lib/python3.14/dist-packages/iotbx/scalepack/tst_merge.py usr/lib/python3.14/dist-packages/iotbx/scalepack/tst_no_merge_original_index.py usr/lib/python3.14/dist-packages/iotbx/shelx/ usr/lib/python3.14/dist-packages/iotbx/shelx/__init__.py usr/lib/python3.14/dist-packages/iotbx/shelx/crystal_symmetry_from_ins.py usr/lib/python3.14/dist-packages/iotbx/shelx/errors.py usr/lib/python3.14/dist-packages/iotbx/shelx/fcf.py usr/lib/python3.14/dist-packages/iotbx/shelx/fvar_encoding.py usr/lib/python3.14/dist-packages/iotbx/shelx/hklf.py usr/lib/python3.14/dist-packages/iotbx/shelx/lexer.py usr/lib/python3.14/dist-packages/iotbx/shelx/parsers.py usr/lib/python3.14/dist-packages/iotbx/shelx/tokens.py usr/lib/python3.14/dist-packages/iotbx/shelx/tst_fvar_encoding.py usr/lib/python3.14/dist-packages/iotbx/shelx/tst_hklf.py usr/lib/python3.14/dist-packages/iotbx/shelx/tst_lex_parse_build.py usr/lib/python3.14/dist-packages/iotbx/shelx/tst_writer.py usr/lib/python3.14/dist-packages/iotbx/shelx/write_ins.py usr/lib/python3.14/dist-packages/iotbx/shelx/writer.py usr/lib/python3.14/dist-packages/iotbx/solve/ usr/lib/python3.14/dist-packages/iotbx/solve/__init__.py usr/lib/python3.14/dist-packages/iotbx/solve/crystal_symmetry_from_inp.py usr/lib/python3.14/dist-packages/iotbx/solve/fpfm_reader.py usr/lib/python3.14/dist-packages/iotbx/xds/ usr/lib/python3.14/dist-packages/iotbx/xds/__init__.py usr/lib/python3.14/dist-packages/iotbx/xds/blank_cbf.py usr/lib/python3.14/dist-packages/iotbx/xds/correction.py usr/lib/python3.14/dist-packages/iotbx/xds/crystal_symmetry_from_hkl.py usr/lib/python3.14/dist-packages/iotbx/xds/gain_cbf.py usr/lib/python3.14/dist-packages/iotbx/xds/geometry.py usr/lib/python3.14/dist-packages/iotbx/xds/integrate_hkl.py usr/lib/python3.14/dist-packages/iotbx/xds/read_ascii.py usr/lib/python3.14/dist-packages/iotbx/xds/spot_xds.py usr/lib/python3.14/dist-packages/iotbx/xds/xds_cbf.py usr/lib/python3.14/dist-packages/iotbx/xds/xds_inp.py usr/lib/python3.14/dist-packages/iotbx/xds/xparm.py usr/lib/python3.14/dist-packages/iotbx/xplor/ usr/lib/python3.14/dist-packages/iotbx/xplor/__init__.py usr/lib/python3.14/dist-packages/iotbx/xplor/crystal_symmetry_from_map.py usr/lib/python3.14/dist-packages/iotbx/xplor/ext.py usr/lib/python3.14/dist-packages/iotbx/xplor/map.py usr/lib/python3.14/dist-packages/iotbx/xplor/tst_xplormap.py usr/lib/python3.14/dist-packages/libtbx/ usr/lib/python3.14/dist-packages/libtbx/__init__.py usr/lib/python3.14/dist-packages/libtbx/assert_utils.py usr/lib/python3.14/dist-packages/libtbx/binary_search.py usr/lib/python3.14/dist-packages/libtbx/callbacks.py usr/lib/python3.14/dist-packages/libtbx/citations.py usr/lib/python3.14/dist-packages/libtbx/clear_paths.py usr/lib/python3.14/dist-packages/libtbx/cli.py usr/lib/python3.14/dist-packages/libtbx/cluster.py usr/lib/python3.14/dist-packages/libtbx/clusterTests.py usr/lib/python3.14/dist-packages/libtbx/code_analysis.py usr/lib/python3.14/dist-packages/libtbx/complex_math.py usr/lib/python3.14/dist-packages/libtbx/configure.py usr/lib/python3.14/dist-packages/libtbx/console_utils.py usr/lib/python3.14/dist-packages/libtbx/containers.py usr/lib/python3.14/dist-packages/libtbx/cpp_function_name.py usr/lib/python3.14/dist-packages/libtbx/crossmingw.py usr/lib/python3.14/dist-packages/libtbx/dlite.py usr/lib/python3.14/dist-packages/libtbx/easy_mp.py usr/lib/python3.14/dist-packages/libtbx/easy_pickle.py usr/lib/python3.14/dist-packages/libtbx/easy_profile.py usr/lib/python3.14/dist-packages/libtbx/easy_run.py usr/lib/python3.14/dist-packages/libtbx/env_config.py usr/lib/python3.14/dist-packages/libtbx/file_clutter.py usr/lib/python3.14/dist-packages/libtbx/find_reference_cycles.py usr/lib/python3.14/dist-packages/libtbx/forward_compatibility.py usr/lib/python3.14/dist-packages/libtbx/introspection.py usr/lib/python3.14/dist-packages/libtbx/libtbx_refresh.py usr/lib/python3.14/dist-packages/libtbx/load_env.py usr/lib/python3.14/dist-packages/libtbx/log.py usr/lib/python3.14/dist-packages/libtbx/math_utils.py usr/lib/python3.14/dist-packages/libtbx/metric_prefixes.py usr/lib/python3.14/dist-packages/libtbx/mpi4py.py usr/lib/python3.14/dist-packages/libtbx/object_oriented_patterns.py usr/lib/python3.14/dist-packages/libtbx/objgraph.py usr/lib/python3.14/dist-packages/libtbx/option_parser.py usr/lib/python3.14/dist-packages/libtbx/path.py usr/lib/python3.14/dist-packages/libtbx/pkg_utils.py usr/lib/python3.14/dist-packages/libtbx/program_template.py usr/lib/python3.14/dist-packages/libtbx/progress.py usr/lib/python3.14/dist-packages/libtbx/pyframe.py usr/lib/python3.14/dist-packages/libtbx/pyplot.py usr/lib/python3.14/dist-packages/libtbx/python_code_parsing.py usr/lib/python3.14/dist-packages/libtbx/resource_monitor.py usr/lib/python3.14/dist-packages/libtbx/run_tests.py usr/lib/python3.14/dist-packages/libtbx/runtime_utils.py usr/lib/python3.14/dist-packages/libtbx/simplexml.py usr/lib/python3.14/dist-packages/libtbx/smart_open.py usr/lib/python3.14/dist-packages/libtbx/start_print_trace.py usr/lib/python3.14/dist-packages/libtbx/str_utils.py usr/lib/python3.14/dist-packages/libtbx/subprocess_with_fixes.py usr/lib/python3.14/dist-packages/libtbx/table_utils.py usr/lib/python3.14/dist-packages/libtbx/thread_utils.py usr/lib/python3.14/dist-packages/libtbx/topological_sort.py usr/lib/python3.14/dist-packages/libtbx/try_hello_world_c.py usr/lib/python3.14/dist-packages/libtbx/tst_add_docstrings_with_ai.py usr/lib/python3.14/dist-packages/libtbx/tst_binary_search.py usr/lib/python3.14/dist-packages/libtbx/tst_citations.py usr/lib/python3.14/dist-packages/libtbx/tst_containers.py usr/lib/python3.14/dist-packages/libtbx/tst_dlite.py usr/lib/python3.14/dist-packages/libtbx/tst_easy_mp.py usr/lib/python3.14/dist-packages/libtbx/tst_easy_mp_multicore.py usr/lib/python3.14/dist-packages/libtbx/tst_easy_mp_state.py usr/lib/python3.14/dist-packages/libtbx/tst_easy_pickle.py usr/lib/python3.14/dist-packages/libtbx/tst_find_unused_imports.py usr/lib/python3.14/dist-packages/libtbx/tst_fully_buffered_timeout.py usr/lib/python3.14/dist-packages/libtbx/tst_mahalanobis.py usr/lib/python3.14/dist-packages/libtbx/tst_math_utils.py usr/lib/python3.14/dist-packages/libtbx/tst_object_oriented_patterns.py usr/lib/python3.14/dist-packages/libtbx/tst_path.py usr/lib/python3.14/dist-packages/libtbx/tst_program_template.py usr/lib/python3.14/dist-packages/libtbx/tst_python_code_parsing.py usr/lib/python3.14/dist-packages/libtbx/tst_representation.py usr/lib/python3.14/dist-packages/libtbx/tst_run_tests_parallel_retry.py usr/lib/python3.14/dist-packages/libtbx/tst_run_tests_parallel_unique_dirs.py usr/lib/python3.14/dist-packages/libtbx/tst_runtime_utils.py usr/lib/python3.14/dist-packages/libtbx/tst_scheduling.py usr/lib/python3.14/dist-packages/libtbx/tst_str_utils.py usr/lib/python3.14/dist-packages/libtbx/tst_thread_utils.py usr/lib/python3.14/dist-packages/libtbx/tst_topological_sort.py usr/lib/python3.14/dist-packages/libtbx/tst_utils.py usr/lib/python3.14/dist-packages/libtbx/tst_version.py usr/lib/python3.14/dist-packages/libtbx/tst_word_index_generator.py usr/lib/python3.14/dist-packages/libtbx/tst_xmlrpc_utils.py usr/lib/python3.14/dist-packages/libtbx/utils.py usr/lib/python3.14/dist-packages/libtbx/version.py usr/lib/python3.14/dist-packages/libtbx/wingide.py usr/lib/python3.14/dist-packages/libtbx/word_index_generator.py usr/lib/python3.14/dist-packages/libtbx/xmlrpc_server_example.py usr/lib/python3.14/dist-packages/libtbx/xmlrpc_utils.py usr/lib/python3.14/dist-packages/libtbx/auto_build/ usr/lib/python3.14/dist-packages/libtbx/auto_build/__init__.py usr/lib/python3.14/dist-packages/libtbx/auto_build/bootstrap.py usr/lib/python3.14/dist-packages/libtbx/auto_build/create_cctbx_bundle_for_installer.py usr/lib/python3.14/dist-packages/libtbx/auto_build/create_installer.py usr/lib/python3.14/dist-packages/libtbx/auto_build/create_mac_app.py usr/lib/python3.14/dist-packages/libtbx/auto_build/create_mac_pkg.py usr/lib/python3.14/dist-packages/libtbx/auto_build/create_windows_exe.py usr/lib/python3.14/dist-packages/libtbx/auto_build/create_windows_installer.py usr/lib/python3.14/dist-packages/libtbx/auto_build/install_base_packages.py usr/lib/python3.14/dist-packages/libtbx/auto_build/install_conda.py usr/lib/python3.14/dist-packages/libtbx/auto_build/install_distribution.py usr/lib/python3.14/dist-packages/libtbx/auto_build/installer_utils.py usr/lib/python3.14/dist-packages/libtbx/auto_build/make_bundle.py usr/lib/python3.14/dist-packages/libtbx/auto_build/package_defs.py usr/lib/python3.14/dist-packages/libtbx/auto_build/plus_installer.py usr/lib/python3.14/dist-packages/libtbx/auto_build/regenerate_module_files.py usr/lib/python3.14/dist-packages/libtbx/auto_build/rpath.py usr/lib/python3.14/dist-packages/libtbx/auto_build/setup_installer.py usr/lib/python3.14/dist-packages/libtbx/auto_build/write_gui_dispatcher_include.py usr/lib/python3.14/dist-packages/libtbx/bundle/ usr/lib/python3.14/dist-packages/libtbx/bundle/__init__.py usr/lib/python3.14/dist-packages/libtbx/bundle/copy_all.py usr/lib/python3.14/dist-packages/libtbx/bundle/copy_build_libtbx.py usr/lib/python3.14/dist-packages/libtbx/bundle/copy_runtime_sources.py usr/lib/python3.14/dist-packages/libtbx/bundle/install_bat.py usr/lib/python3.14/dist-packages/libtbx/bundle/install_csh.py usr/lib/python3.14/dist-packages/libtbx/bundle/utils.py usr/lib/python3.14/dist-packages/libtbx/command_line/ usr/lib/python3.14/dist-packages/libtbx/command_line/__init__.py usr/lib/python3.14/dist-packages/libtbx/command_line/add_docstrings_with_ai.py usr/lib/python3.14/dist-packages/libtbx/command_line/analyse_code_comments.py usr/lib/python3.14/dist-packages/libtbx/command_line/any2unix.py usr/lib/python3.14/dist-packages/libtbx/command_line/assert_line_count.py usr/lib/python3.14/dist-packages/libtbx/command_line/assert_not_show_diff.py usr/lib/python3.14/dist-packages/libtbx/command_line/assert_stdin.py usr/lib/python3.14/dist-packages/libtbx/command_line/assert_stdin_contains_strings.py usr/lib/python3.14/dist-packages/libtbx/command_line/assert_stdin_ends_with.py usr/lib/python3.14/dist-packages/libtbx/command_line/bootstrap.py usr/lib/python3.14/dist-packages/libtbx/command_line/bundle_as_exe.py usr/lib/python3.14/dist-packages/libtbx/command_line/cctbx_chunk.py usr/lib/python3.14/dist-packages/libtbx/command_line/check_libcpp.py usr/lib/python3.14/dist-packages/libtbx/command_line/clean_clutter.py usr/lib/python3.14/dist-packages/libtbx/command_line/clear_paths.py usr/lib/python3.14/dist-packages/libtbx/command_line/create_cctbx_bundle_for_installer.py usr/lib/python3.14/dist-packages/libtbx/command_line/create_install_script_bat.py usr/lib/python3.14/dist-packages/libtbx/command_line/create_installer.py usr/lib/python3.14/dist-packages/libtbx/command_line/create_mac_app.py usr/lib/python3.14/dist-packages/libtbx/command_line/create_selfx.py usr/lib/python3.14/dist-packages/libtbx/command_line/create_unzipsfx.py usr/lib/python3.14/dist-packages/libtbx/command_line/create_windows_exe.py usr/lib/python3.14/dist-packages/libtbx/command_line/dtrace.py usr/lib/python3.14/dist-packages/libtbx/command_line/easy_qsub.py usr/lib/python3.14/dist-packages/libtbx/command_line/env_run.py usr/lib/python3.14/dist-packages/libtbx/command_line/epydoc_run.py usr/lib/python3.14/dist-packages/libtbx/command_line/extract_code_from_txt.py usr/lib/python3.14/dist-packages/libtbx/command_line/find_clutter.py usr/lib/python3.14/dist-packages/libtbx/command_line/find_files.py usr/lib/python3.14/dist-packages/libtbx/command_line/find_in_repositories.py usr/lib/python3.14/dist-packages/libtbx/command_line/find_old_style_classes.py usr/lib/python3.14/dist-packages/libtbx/command_line/find_pdb_mmcif_problems.py usr/lib/python3.14/dist-packages/libtbx/command_line/find_reserved_names.py usr/lib/python3.14/dist-packages/libtbx/command_line/find_under_build.py usr/lib/python3.14/dist-packages/libtbx/command_line/find_untested.py usr/lib/python3.14/dist-packages/libtbx/command_line/find_unused_imports.py usr/lib/python3.14/dist-packages/libtbx/command_line/find_unused_imports_crude.py usr/lib/python3.14/dist-packages/libtbx/command_line/git_avoid_merges.py usr/lib/python3.14/dist-packages/libtbx/command_line/help.py usr/lib/python3.14/dist-packages/libtbx/command_line/import_all_ext.py usr/lib/python3.14/dist-packages/libtbx/command_line/import_all_python.py usr/lib/python3.14/dist-packages/libtbx/command_line/install.py usr/lib/python3.14/dist-packages/libtbx/command_line/install_conda.py usr/lib/python3.14/dist-packages/libtbx/command_line/ipython_shell_start.py usr/lib/python3.14/dist-packages/libtbx/command_line/line_count.py usr/lib/python3.14/dist-packages/libtbx/command_line/list_files.py usr/lib/python3.14/dist-packages/libtbx/command_line/list_modules.py usr/lib/python3.14/dist-packages/libtbx/command_line/list_source_files_sorted_by_size.py usr/lib/python3.14/dist-packages/libtbx/command_line/make_dist.py usr/lib/python3.14/dist-packages/libtbx/command_line/make_sphinx_html.py usr/lib/python3.14/dist-packages/libtbx/command_line/nequal.py usr/lib/python3.14/dist-packages/libtbx/command_line/parallel_simple.py usr/lib/python3.14/dist-packages/libtbx/command_line/path_utility.py usr/lib/python3.14/dist-packages/libtbx/command_line/phil.py usr/lib/python3.14/dist-packages/libtbx/command_line/prime_factors_of.py usr/lib/python3.14/dist-packages/libtbx/command_line/printenv.py usr/lib/python3.14/dist-packages/libtbx/command_line/py_compile_all.py usr/lib/python3.14/dist-packages/libtbx/command_line/raise_exception_for_testing.py usr/lib/python3.14/dist-packages/libtbx/command_line/reindent.py usr/lib/python3.14/dist-packages/libtbx/command_line/remote_processing.py usr/lib/python3.14/dist-packages/libtbx/command_line/remove_tree.py usr/lib/python3.14/dist-packages/libtbx/command_line/remove_unused_imports.py usr/lib/python3.14/dist-packages/libtbx/command_line/resource_monitor_plot.py usr/lib/python3.14/dist-packages/libtbx/command_line/run_pickled_function.py usr/lib/python3.14/dist-packages/libtbx/command_line/run_tests_parallel.py usr/lib/python3.14/dist-packages/libtbx/command_line/scons.py usr/lib/python3.14/dist-packages/libtbx/command_line/seconds_since_the_epoch.py usr/lib/python3.14/dist-packages/libtbx/command_line/sge_available_slots.py usr/lib/python3.14/dist-packages/libtbx/command_line/sge_qstat_counts.py usr/lib/python3.14/dist-packages/libtbx/command_line/show_all_on_path.py usr/lib/python3.14/dist-packages/libtbx/command_line/show_bin_path.py usr/lib/python3.14/dist-packages/libtbx/command_line/show_build_options.py usr/lib/python3.14/dist-packages/libtbx/command_line/show_build_path.py usr/lib/python3.14/dist-packages/libtbx/command_line/show_but_no_repr.py usr/lib/python3.14/dist-packages/libtbx/command_line/show_commands.py usr/lib/python3.14/dist-packages/libtbx/command_line/show_date_and_time.py usr/lib/python3.14/dist-packages/libtbx/command_line/show_dist_paths.py usr/lib/python3.14/dist-packages/libtbx/command_line/show_env.py usr/lib/python3.14/dist-packages/libtbx/command_line/show_environ_usage.py usr/lib/python3.14/dist-packages/libtbx/command_line/show_full_command_path.py usr/lib/python3.14/dist-packages/libtbx/command_line/show_host_and_user.py usr/lib/python3.14/dist-packages/libtbx/command_line/show_include_paths.py usr/lib/python3.14/dist-packages/libtbx/command_line/show_lib_path.py usr/lib/python3.14/dist-packages/libtbx/command_line/show_module_dependencies.py usr/lib/python3.14/dist-packages/libtbx/command_line/show_number_of_processors.py usr/lib/python3.14/dist-packages/libtbx/command_line/show_numeric_version.py usr/lib/python3.14/dist-packages/libtbx/command_line/show_numpy_version.py usr/lib/python3.14/dist-packages/libtbx/command_line/show_python_dependencies.py usr/lib/python3.14/dist-packages/libtbx/command_line/show_python_sys_executable.py usr/lib/python3.14/dist-packages/libtbx/command_line/show_pythonpath.py usr/lib/python3.14/dist-packages/libtbx/command_line/show_repository_paths.py usr/lib/python3.14/dist-packages/libtbx/command_line/show_tests.py usr/lib/python3.14/dist-packages/libtbx/command_line/show_variable_names.py usr/lib/python3.14/dist-packages/libtbx/command_line/sphinx_build.py usr/lib/python3.14/dist-packages/libtbx/command_line/start_binary_bundle.py usr/lib/python3.14/dist-packages/libtbx/command_line/start_process.py usr/lib/python3.14/dist-packages/libtbx/command_line/wait_for_file.py usr/lib/python3.14/dist-packages/libtbx/development/ usr/lib/python3.14/dist-packages/libtbx/development/__init__.py usr/lib/python3.14/dist-packages/libtbx/development/except_Exception.py usr/lib/python3.14/dist-packages/libtbx/development/timers.py usr/lib/python3.14/dist-packages/libtbx/development/xcode_build_phase.py usr/lib/python3.14/dist-packages/libtbx/langchain/ usr/lib/python3.14/dist-packages/libtbx/langchain/__init__.py usr/lib/python3.14/dist-packages/libtbx/langchain/phenix_knowledge.py usr/lib/python3.14/dist-packages/libtbx/langchain/run_build_db.py usr/lib/python3.14/dist-packages/libtbx/langchain/run_inspect_db.py usr/lib/python3.14/dist-packages/libtbx/langchain/run_query_docs.py usr/lib/python3.14/dist-packages/libtbx/langchain/agent/ usr/lib/python3.14/dist-packages/libtbx/langchain/agent/__init__.py usr/lib/python3.14/dist-packages/libtbx/langchain/agent/advice_preprocessor.py usr/lib/python3.14/dist-packages/libtbx/langchain/agent/api_client.py usr/lib/python3.14/dist-packages/libtbx/langchain/agent/best_files_tracker.py usr/lib/python3.14/dist-packages/libtbx/langchain/agent/command_builder.py usr/lib/python3.14/dist-packages/libtbx/langchain/agent/command_postprocessor.py usr/lib/python3.14/dist-packages/libtbx/langchain/agent/config_loader.py usr/lib/python3.14/dist-packages/libtbx/langchain/agent/contract.py usr/lib/python3.14/dist-packages/libtbx/langchain/agent/directive_extractor.py usr/lib/python3.14/dist-packages/libtbx/langchain/agent/directive_validator.py usr/lib/python3.14/dist-packages/libtbx/langchain/agent/display_data_model.py usr/lib/python3.14/dist-packages/libtbx/langchain/agent/docs_tools.py usr/lib/python3.14/dist-packages/libtbx/langchain/agent/dry_run_manager.py usr/lib/python3.14/dist-packages/libtbx/langchain/agent/error_analyzer.py usr/lib/python3.14/dist-packages/libtbx/langchain/agent/error_classifier.py usr/lib/python3.14/dist-packages/libtbx/langchain/agent/event_formatter.py usr/lib/python3.14/dist-packages/libtbx/langchain/agent/event_log.py usr/lib/python3.14/dist-packages/libtbx/langchain/agent/failure_diagnoser.py usr/lib/python3.14/dist-packages/libtbx/langchain/agent/file_metadata.py usr/lib/python3.14/dist-packages/libtbx/langchain/agent/file_utils.py usr/lib/python3.14/dist-packages/libtbx/langchain/agent/format_validation.py usr/lib/python3.14/dist-packages/libtbx/langchain/agent/gate_evaluator.py usr/lib/python3.14/dist-packages/libtbx/langchain/agent/generate_logic_doc.py usr/lib/python3.14/dist-packages/libtbx/langchain/agent/generate_safety_docs.py usr/lib/python3.14/dist-packages/libtbx/langchain/agent/graph.py usr/lib/python3.14/dist-packages/libtbx/langchain/agent/graph_nodes.py usr/lib/python3.14/dist-packages/libtbx/langchain/agent/graph_state.py usr/lib/python3.14/dist-packages/libtbx/langchain/agent/hypothesis_evaluator.py usr/lib/python3.14/dist-packages/libtbx/langchain/agent/intent_classifier.py usr/lib/python3.14/dist-packages/libtbx/langchain/agent/kb_tags.py usr/lib/python3.14/dist-packages/libtbx/langchain/agent/log_section_extractor.py usr/lib/python3.14/dist-packages/libtbx/langchain/agent/memory.py usr/lib/python3.14/dist-packages/libtbx/langchain/agent/metric_evaluator.py usr/lib/python3.14/dist-packages/libtbx/langchain/agent/metrics_analyzer.py usr/lib/python3.14/dist-packages/libtbx/langchain/agent/nl_to_phil.py usr/lib/python3.14/dist-packages/libtbx/langchain/agent/pattern_manager.py usr/lib/python3.14/dist-packages/libtbx/langchain/agent/perceive_checks.py usr/lib/python3.14/dist-packages/libtbx/langchain/agent/phenix_utils.py usr/lib/python3.14/dist-packages/libtbx/langchain/agent/phil_validator.py usr/lib/python3.14/dist-packages/libtbx/langchain/agent/placement_checker.py usr/lib/python3.14/dist-packages/libtbx/langchain/agent/plan_generator.py usr/lib/python3.14/dist-packages/libtbx/langchain/agent/planner.py usr/lib/python3.14/dist-packages/libtbx/langchain/agent/program_registry.py usr/lib/python3.14/dist-packages/libtbx/langchain/agent/program_validator.py usr/lib/python3.14/dist-packages/libtbx/langchain/agent/rate_limit_handler.py usr/lib/python3.14/dist-packages/libtbx/langchain/agent/rules_selector.py usr/lib/python3.14/dist-packages/libtbx/langchain/agent/sanity_checker.py usr/lib/python3.14/dist-packages/libtbx/langchain/agent/session.py usr/lib/python3.14/dist-packages/libtbx/langchain/agent/session_tools.py usr/lib/python3.14/dist-packages/libtbx/langchain/agent/strategy_memory.py usr/lib/python3.14/dist-packages/libtbx/langchain/agent/structure_model.py usr/lib/python3.14/dist-packages/libtbx/langchain/agent/template_builder.py usr/lib/python3.14/dist-packages/libtbx/langchain/agent/thinking_agent.py usr/lib/python3.14/dist-packages/libtbx/langchain/agent/transport.py usr/lib/python3.14/dist-packages/libtbx/langchain/agent/tst_agent_enhancements.py usr/lib/python3.14/dist-packages/libtbx/langchain/agent/utils.py usr/lib/python3.14/dist-packages/libtbx/langchain/agent/validation_history.py usr/lib/python3.14/dist-packages/libtbx/langchain/agent/validation_inspector.py usr/lib/python3.14/dist-packages/libtbx/langchain/agent/workflow_engine.py usr/lib/python3.14/dist-packages/libtbx/langchain/agent/workflow_state.py usr/lib/python3.14/dist-packages/libtbx/langchain/agent/yaml_tools.py usr/lib/python3.14/dist-packages/libtbx/langchain/analysis/ usr/lib/python3.14/dist-packages/libtbx/langchain/analysis/__init__.py usr/lib/python3.14/dist-packages/libtbx/langchain/analysis/agent_session_analyzer.py usr/lib/python3.14/dist-packages/libtbx/langchain/analysis/analyzer.py usr/lib/python3.14/dist-packages/libtbx/langchain/analysis/log_info.py usr/lib/python3.14/dist-packages/libtbx/langchain/analysis/state_extractor.py usr/lib/python3.14/dist-packages/libtbx/langchain/analysis/summarizer.py usr/lib/python3.14/dist-packages/libtbx/langchain/commands/ usr/lib/python3.14/dist-packages/libtbx/langchain/commands/__init__.py usr/lib/python3.14/dist-packages/libtbx/langchain/commands/base.py usr/lib/python3.14/dist-packages/libtbx/langchain/core/ usr/lib/python3.14/dist-packages/libtbx/langchain/core/__init__.py usr/lib/python3.14/dist-packages/libtbx/langchain/core/llm.py usr/lib/python3.14/dist-packages/libtbx/langchain/core/types.py usr/lib/python3.14/dist-packages/libtbx/langchain/examples/ usr/lib/python3.14/dist-packages/libtbx/langchain/examples/__init__.py usr/lib/python3.14/dist-packages/libtbx/langchain/knowledge/ usr/lib/python3.14/dist-packages/libtbx/langchain/knowledge/__init__.py usr/lib/python3.14/dist-packages/libtbx/langchain/knowledge/api_schema.py usr/lib/python3.14/dist-packages/libtbx/langchain/knowledge/explanation_prompts.py usr/lib/python3.14/dist-packages/libtbx/langchain/knowledge/html_report_template.py usr/lib/python3.14/dist-packages/libtbx/langchain/knowledge/kb_loader.py usr/lib/python3.14/dist-packages/libtbx/langchain/knowledge/metric_patterns.py usr/lib/python3.14/dist-packages/libtbx/langchain/knowledge/phenix_programs.py usr/lib/python3.14/dist-packages/libtbx/langchain/knowledge/plan_schema.py usr/lib/python3.14/dist-packages/libtbx/langchain/knowledge/plan_template_loader.py usr/lib/python3.14/dist-packages/libtbx/langchain/knowledge/program_registration.py usr/lib/python3.14/dist-packages/libtbx/langchain/knowledge/prompts.py usr/lib/python3.14/dist-packages/libtbx/langchain/knowledge/prompts_hybrid.py usr/lib/python3.14/dist-packages/libtbx/langchain/knowledge/summary_display.py usr/lib/python3.14/dist-packages/libtbx/langchain/knowledge/thinking_prompts.py usr/lib/python3.14/dist-packages/libtbx/langchain/knowledge/yaml_loader.py usr/lib/python3.14/dist-packages/libtbx/langchain/rag/ usr/lib/python3.14/dist-packages/libtbx/langchain/rag/__init__.py usr/lib/python3.14/dist-packages/libtbx/langchain/rag/document_loader.py usr/lib/python3.14/dist-packages/libtbx/langchain/rag/retriever.py usr/lib/python3.14/dist-packages/libtbx/langchain/rag/vector_store.py usr/lib/python3.14/dist-packages/libtbx/langchain/strategies/ usr/lib/python3.14/dist-packages/libtbx/langchain/strategies/__init__.py usr/lib/python3.14/dist-packages/libtbx/langchain/strategies/base.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/ usr/lib/python3.14/dist-packages/libtbx/langchain/tests/__init__.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/analyze_tutorial_runs.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/audit_phase_rename.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/run_all_tests.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/test_api_keys.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_abort_message_all_stops.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_action_item_1.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_advice_preprocessing.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_api_schema.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_audit_fixes.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_autosol_bugs.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_backward_compat.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_best_files_tracker.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_command_builder.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_contract_compliance.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_copies_tracking.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_decision_flow.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_diagnosed_failure_stop.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_directive_extractor.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_directive_validator.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_directives_integration.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_display_data_model.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_docs_tools.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_dry_run.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_error_analyzer.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_error_classifier.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_event_formatter_file_categories.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_event_system.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_explanation_prompts.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_fabricated_stop_condition.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_file_categorization.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_file_utils.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_fix_verification.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_gate_evaluator.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_halfmap_sigmaa_inventory.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_hardcoded_cleanup.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_history_analysis.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_hypothesis_evaluator.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_integration.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_intent_classifier.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_langchain_tools.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_log_extractor.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_metric_patterns.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_metrics_analyzer.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_mtz_crosscheck.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_mtz_phases_session_blocking.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_n_bugs.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_new_programs.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_old_client_compat.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_pattern_manager.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_perceive_stop_checks.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_phase0_static_audit.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_phase1_contract_gaps.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_phase2_path_consistency.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_phase3_bug5.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_phase3_serialization_symmetry.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_phase4_history_flags.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_phase5_error_classification.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_phase6_category_consumer.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_phase7_routing_simulation.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_phase8_command_building.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_phase9_llm_perturbation.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_phaser_multimodel.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_phil_validation.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_plan_generator.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_plan_schema.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_program_registration.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_sanity_checker.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_scenario_tracer.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_session_directives.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_session_summary.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_session_tools.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_shared_code_imports.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_silent_stop_abort_messages.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_state_serialization.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_stop_condition_fix.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_stop_feedback_api_plan_command.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_stop_reason_codes.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_stop_reason_prompt.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_strategy_memory.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_structure_model.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_summary_display.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_template.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_thinking_agent.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_thinking_defense.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_transport.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_utils.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_v112_13_fixes.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_validate_file_overrides.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_validation_history.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_workflow_complete_stop.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_workflow_state.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_yaml_config.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/tst_yaml_tools.py usr/lib/python3.14/dist-packages/libtbx/langchain/tests/integration/ usr/lib/python3.14/dist-packages/libtbx/langchain/tests/integration/__init__.py usr/lib/python3.14/dist-packages/libtbx/langchain/utils/ usr/lib/python3.14/dist-packages/libtbx/langchain/utils/__init__.py usr/lib/python3.14/dist-packages/libtbx/langchain/utils/query.py usr/lib/python3.14/dist-packages/libtbx/langchain/utils/run_utils.py usr/lib/python3.14/dist-packages/libtbx/langchain/utils/text_processing.py usr/lib/python3.14/dist-packages/libtbx/langchain/validation/ usr/lib/python3.14/dist-packages/libtbx/langchain/validation/__init__.py usr/lib/python3.14/dist-packages/libtbx/langchain/validation/base.py usr/lib/python3.14/dist-packages/libtbx/langchain/validation/core_validator.py usr/lib/python3.14/dist-packages/libtbx/langchain/validation/mtz_utils.py usr/lib/python3.14/dist-packages/libtbx/langchain/validation/phenix_refine.py usr/lib/python3.14/dist-packages/libtbx/langchain/validation/registry.py usr/lib/python3.14/dist-packages/libtbx/phil/ usr/lib/python3.14/dist-packages/libtbx/phil/__init__.py usr/lib/python3.14/dist-packages/libtbx/phil/command_line.py usr/lib/python3.14/dist-packages/libtbx/phil/experimental.py usr/lib/python3.14/dist-packages/libtbx/phil/gui_objects.py usr/lib/python3.14/dist-packages/libtbx/phil/interface.py usr/lib/python3.14/dist-packages/libtbx/phil/parser.py usr/lib/python3.14/dist-packages/libtbx/phil/tokenizer.py usr/lib/python3.14/dist-packages/libtbx/phil/tst.py usr/lib/python3.14/dist-packages/libtbx/phil/tst_experimental.py usr/lib/python3.14/dist-packages/libtbx/phil/tst_interface.py usr/lib/python3.14/dist-packages/libtbx/phil/tst_tokenizer.py usr/lib/python3.14/dist-packages/libtbx/program_utils/ usr/lib/python3.14/dist-packages/libtbx/program_utils/__init__.py usr/lib/python3.14/dist-packages/libtbx/program_utils/result.py usr/lib/python3.14/dist-packages/libtbx/program_utils/statistics_info.py usr/lib/python3.14/dist-packages/libtbx/queuing_system_utils/ usr/lib/python3.14/dist-packages/libtbx/queuing_system_utils/__init__.py usr/lib/python3.14/dist-packages/libtbx/queuing_system_utils/communication.py usr/lib/python3.14/dist-packages/libtbx/queuing_system_utils/generic.py usr/lib/python3.14/dist-packages/libtbx/queuing_system_utils/looping.py usr/lib/python3.14/dist-packages/libtbx/queuing_system_utils/lsf.py usr/lib/python3.14/dist-packages/libtbx/queuing_system_utils/pbs_utils.py usr/lib/python3.14/dist-packages/libtbx/queuing_system_utils/remote.py usr/lib/python3.14/dist-packages/libtbx/queuing_system_utils/scheduling.py usr/lib/python3.14/dist-packages/libtbx/queuing_system_utils/scheduling_helpers.py usr/lib/python3.14/dist-packages/libtbx/queuing_system_utils/sge_utils.py usr/lib/python3.14/dist-packages/libtbx/queuing_system_utils/tst.py usr/lib/python3.14/dist-packages/libtbx/queuing_system_utils/processing/ usr/lib/python3.14/dist-packages/libtbx/queuing_system_utils/processing/__init__.py usr/lib/python3.14/dist-packages/libtbx/queuing_system_utils/processing/errors.py usr/lib/python3.14/dist-packages/libtbx/queuing_system_utils/processing/polling.py usr/lib/python3.14/dist-packages/libtbx/queuing_system_utils/processing/status.py usr/lib/python3.14/dist-packages/libtbx/queuing_system_utils/processing/submission.py usr/lib/python3.14/dist-packages/libtbx/queuing_system_utils/processing/transfer.py usr/lib/python3.14/dist-packages/libtbx/queuing_system_utils/processing/util.py usr/lib/python3.14/dist-packages/libtbx/scheduling/ usr/lib/python3.14/dist-packages/libtbx/scheduling/__init__.py usr/lib/python3.14/dist-packages/libtbx/scheduling/cluster_handler.py usr/lib/python3.14/dist-packages/libtbx/scheduling/file_queue.py usr/lib/python3.14/dist-packages/libtbx/scheduling/job_scheduler.py usr/lib/python3.14/dist-packages/libtbx/scheduling/mainthread.py usr/lib/python3.14/dist-packages/libtbx/scheduling/mp_handler.py usr/lib/python3.14/dist-packages/libtbx/scheduling/parallel_for.py usr/lib/python3.14/dist-packages/libtbx/scheduling/philgen.py usr/lib/python3.14/dist-packages/libtbx/scheduling/process_pool.py usr/lib/python3.14/dist-packages/libtbx/scheduling/result.py usr/lib/python3.14/dist-packages/libtbx/scheduling/shared_resource.py usr/lib/python3.14/dist-packages/libtbx/scheduling/socket_queue.py usr/lib/python3.14/dist-packages/libtbx/scheduling/stacktrace.py usr/lib/python3.14/dist-packages/libtbx/scheduling/thread_handler.py usr/lib/python3.14/dist-packages/libtbx/server/ usr/lib/python3.14/dist-packages/libtbx/server/FileClient.py usr/lib/python3.14/dist-packages/libtbx/server/FileServer.py usr/lib/python3.14/dist-packages/libtbx/server/FileSocket.py usr/lib/python3.14/dist-packages/libtbx/server/SocketServer.py usr/lib/python3.14/dist-packages/libtbx/server/StartServer.py usr/lib/python3.14/dist-packages/libtbx/server/__init__.py usr/lib/python3.14/dist-packages/libtbx/sphinx/ usr/lib/python3.14/dist-packages/libtbx/sphinx/__init__.py usr/lib/python3.14/dist-packages/libtbx/sphinx/phil.py usr/lib/python3.14/dist-packages/libtbx/sphinx/pubmed.py usr/lib/python3.14/dist-packages/libtbx/sphinx/python_string.py usr/lib/python3.14/dist-packages/libtbx/test_utils/ usr/lib/python3.14/dist-packages/libtbx/test_utils/__init__.py usr/lib/python3.14/dist-packages/libtbx/test_utils/parallel.py usr/lib/python3.14/dist-packages/mmtbx/ usr/lib/python3.14/dist-packages/mmtbx/__init__.py usr/lib/python3.14/dist-packages/mmtbx/arrays.py usr/lib/python3.14/dist-packages/mmtbx/clashes.py usr/lib/python3.14/dist-packages/mmtbx/domains_from_pae.py usr/lib/python3.14/dist-packages/mmtbx/f_model_info.py usr/lib/python3.14/dist-packages/mmtbx/find_peaks.py usr/lib/python3.14/dist-packages/mmtbx/grow_density.py usr/lib/python3.14/dist-packages/mmtbx/invariant_domain.py usr/lib/python3.14/dist-packages/mmtbx/lattice.py usr/lib/python3.14/dist-packages/mmtbx/libtbx_refresh.py usr/lib/python3.14/dist-packages/mmtbx/map_tools.py usr/lib/python3.14/dist-packages/mmtbx/model_vs_data.py usr/lib/python3.14/dist-packages/mmtbx/msa.py usr/lib/python3.14/dist-packages/mmtbx/pdb_distances.py usr/lib/python3.14/dist-packages/mmtbx/pdb_symmetry.py usr/lib/python3.14/dist-packages/mmtbx/pdbtools.py usr/lib/python3.14/dist-packages/mmtbx/process_predicted_model.py usr/lib/python3.14/dist-packages/mmtbx/proq2.py usr/lib/python3.14/dist-packages/mmtbx/real_space_correlation.py usr/lib/python3.14/dist-packages/mmtbx/resolve_resources.py usr/lib/python3.14/dist-packages/mmtbx/restraints.py usr/lib/python3.14/dist-packages/mmtbx/run_tests.py usr/lib/python3.14/dist-packages/mmtbx/superpose.py usr/lib/python3.14/dist-packages/mmtbx/xmanip.py usr/lib/python3.14/dist-packages/mmtbx/xmanip_tasks.py usr/lib/python3.14/dist-packages/mmtbx/alignment/ usr/lib/python3.14/dist-packages/mmtbx/alignment/__init__.py usr/lib/python3.14/dist-packages/mmtbx/atomic_environment_vectors/ usr/lib/python3.14/dist-packages/mmtbx/atomic_environment_vectors/__init__.py usr/lib/python3.14/dist-packages/mmtbx/atomic_environment_vectors/tst.py usr/lib/python3.14/dist-packages/mmtbx/building/ usr/lib/python3.14/dist-packages/mmtbx/building/__init__.py usr/lib/python3.14/dist-packages/mmtbx/building/cablam_idealization.py usr/lib/python3.14/dist-packages/mmtbx/building/extend_sidechains.py usr/lib/python3.14/dist-packages/mmtbx/building/loop_idealization.py usr/lib/python3.14/dist-packages/mmtbx/building/merge_models.py usr/lib/python3.14/dist-packages/mmtbx/building/minimize_chain.py usr/lib/python3.14/dist-packages/mmtbx/building/tst_extend_sidechains.py usr/lib/python3.14/dist-packages/mmtbx/building/tst_extend_sidechains_2.py usr/lib/python3.14/dist-packages/mmtbx/building/ligands/ usr/lib/python3.14/dist-packages/mmtbx/building/ligands/__init__.py usr/lib/python3.14/dist-packages/mmtbx/building/ligands/lifi.py usr/lib/python3.14/dist-packages/mmtbx/building/ligands/tst_00.py usr/lib/python3.14/dist-packages/mmtbx/building/loop_closure/ usr/lib/python3.14/dist-packages/mmtbx/building/loop_closure/__init__.py usr/lib/python3.14/dist-packages/mmtbx/building/loop_closure/berkeley_ramalyze.py usr/lib/python3.14/dist-packages/mmtbx/building/loop_closure/ccd.py usr/lib/python3.14/dist-packages/mmtbx/building/loop_closure/starting_conformations.py usr/lib/python3.14/dist-packages/mmtbx/building/loop_closure/utils.py usr/lib/python3.14/dist-packages/mmtbx/bulk_solvent/ usr/lib/python3.14/dist-packages/mmtbx/bulk_solvent/__init__.py usr/lib/python3.14/dist-packages/mmtbx/bulk_solvent/bulk_solvent_and_scaling.py usr/lib/python3.14/dist-packages/mmtbx/bulk_solvent/example.py usr/lib/python3.14/dist-packages/mmtbx/bulk_solvent/example2.py usr/lib/python3.14/dist-packages/mmtbx/bulk_solvent/f_model_all_scales.py usr/lib/python3.14/dist-packages/mmtbx/bulk_solvent/kbu_refinery.py usr/lib/python3.14/dist-packages/mmtbx/bulk_solvent/mosaic.py usr/lib/python3.14/dist-packages/mmtbx/bulk_solvent/multi_mask_bulk_solvent.py usr/lib/python3.14/dist-packages/mmtbx/bulk_solvent/scaler.py usr/lib/python3.14/dist-packages/mmtbx/bulk_solvent/tst_aniso_scaler.py usr/lib/python3.14/dist-packages/mmtbx/bulk_solvent/tst_bulk_solvent_and_scaling.py usr/lib/python3.14/dist-packages/mmtbx/bulk_solvent/tst_fit_kexpb_to_ktotal.py usr/lib/python3.14/dist-packages/mmtbx/bulk_solvent/tst_flat_nonuniform.py usr/lib/python3.14/dist-packages/mmtbx/bulk_solvent/tst_kb_sol_u_star_fd.py usr/lib/python3.14/dist-packages/mmtbx/bulk_solvent/tst_mosaic.py usr/lib/python3.14/dist-packages/mmtbx/bulk_solvent/tst_scaler.py usr/lib/python3.14/dist-packages/mmtbx/chemical_components/ usr/lib/python3.14/dist-packages/mmtbx/chemical_components/__init__.py usr/lib/python3.14/dist-packages/mmtbx/chemical_components/cif_parser.py usr/lib/python3.14/dist-packages/mmtbx/chemical_components/tst.py usr/lib/python3.14/dist-packages/mmtbx/command_line/ usr/lib/python3.14/dist-packages/mmtbx/command_line/__init__.py usr/lib/python3.14/dist-packages/mmtbx/command_line/altloc_remediate.py usr/lib/python3.14/dist-packages/mmtbx/command_line/angle.py usr/lib/python3.14/dist-packages/mmtbx/command_line/apply_ncs_to_ligand.py usr/lib/python3.14/dist-packages/mmtbx/command_line/arginine_geometry.py usr/lib/python3.14/dist-packages/mmtbx/command_line/atom_valence_simple.py usr/lib/python3.14/dist-packages/mmtbx/command_line/barbed_wire_analysis.py usr/lib/python3.14/dist-packages/mmtbx/command_line/cablam.py usr/lib/python3.14/dist-packages/mmtbx/command_line/cablam_idealization.py usr/lib/python3.14/dist-packages/mmtbx/command_line/cbetadev.py usr/lib/python3.14/dist-packages/mmtbx/command_line/cc_star.py usr/lib/python3.14/dist-packages/mmtbx/command_line/chiral_validation.py usr/lib/python3.14/dist-packages/mmtbx/command_line/cif_as_mtz.py usr/lib/python3.14/dist-packages/mmtbx/command_line/clashscore.py usr/lib/python3.14/dist-packages/mmtbx/command_line/clashscore2.py usr/lib/python3.14/dist-packages/mmtbx/command_line/comparama.py usr/lib/python3.14/dist-packages/mmtbx/command_line/debug_riding.py usr/lib/python3.14/dist-packages/mmtbx/command_line/density_modification.py usr/lib/python3.14/dist-packages/mmtbx/command_line/development_aev.py usr/lib/python3.14/dist-packages/mmtbx/command_line/development_fem.py usr/lib/python3.14/dist-packages/mmtbx/command_line/distance_difference.py usr/lib/python3.14/dist-packages/mmtbx/command_line/dynamics.py usr/lib/python3.14/dist-packages/mmtbx/command_line/electrons.py usr/lib/python3.14/dist-packages/mmtbx/command_line/emringer.py usr/lib/python3.14/dist-packages/mmtbx/command_line/emringer_score.py usr/lib/python3.14/dist-packages/mmtbx/command_line/estimate_bijvoet_ratio.py usr/lib/python3.14/dist-packages/mmtbx/command_line/f000.py usr/lib/python3.14/dist-packages/mmtbx/command_line/fab_elbow_angle.py usr/lib/python3.14/dist-packages/mmtbx/command_line/fake_f_obs.py usr/lib/python3.14/dist-packages/mmtbx/command_line/fetch_pdb.py usr/lib/python3.14/dist-packages/mmtbx/command_line/find_peaks_holes.py usr/lib/python3.14/dist-packages/mmtbx/command_line/find_residue_in_pdb.py usr/lib/python3.14/dist-packages/mmtbx/command_line/find_tls_groups.py usr/lib/python3.14/dist-packages/mmtbx/command_line/fmodel.py usr/lib/python3.14/dist-packages/mmtbx/command_line/fobs_minus_fobs_map.py usr/lib/python3.14/dist-packages/mmtbx/command_line/geometry_minimization.py usr/lib/python3.14/dist-packages/mmtbx/command_line/grow_density.py usr/lib/python3.14/dist-packages/mmtbx/command_line/hbond.py usr/lib/python3.14/dist-packages/mmtbx/command_line/helix_sheet_recs_as_pdb_files.py usr/lib/python3.14/dist-packages/mmtbx/command_line/holton_geometry_validation.py usr/lib/python3.14/dist-packages/mmtbx/command_line/hydrogenate.py usr/lib/python3.14/dist-packages/mmtbx/command_line/kinemage.py usr/lib/python3.14/dist-packages/mmtbx/command_line/ligand_restraints_validation.py usr/lib/python3.14/dist-packages/mmtbx/command_line/map_box.py usr/lib/python3.14/dist-packages/mmtbx/command_line/map_comparison.py usr/lib/python3.14/dist-packages/mmtbx/command_line/map_to_model_histogram.py usr/lib/python3.14/dist-packages/mmtbx/command_line/map_to_structure_factors.py usr/lib/python3.14/dist-packages/mmtbx/command_line/maps.py usr/lib/python3.14/dist-packages/mmtbx/command_line/mask.py usr/lib/python3.14/dist-packages/mmtbx/command_line/massage_data.py usr/lib/python3.14/dist-packages/mmtbx/command_line/matthews.py usr/lib/python3.14/dist-packages/mmtbx/command_line/maximum_entropy_map.py usr/lib/python3.14/dist-packages/mmtbx/command_line/model_idealization.py usr/lib/python3.14/dist-packages/mmtbx/command_line/model_map.py usr/lib/python3.14/dist-packages/mmtbx/command_line/model_model_distances.py usr/lib/python3.14/dist-packages/mmtbx/command_line/model_vs_data.py usr/lib/python3.14/dist-packages/mmtbx/command_line/model_vs_map.py usr/lib/python3.14/dist-packages/mmtbx/command_line/model_vs_sequence.py usr/lib/python3.14/dist-packages/mmtbx/command_line/models_as_chains.py usr/lib/python3.14/dist-packages/mmtbx/command_line/molprobity.py usr/lib/python3.14/dist-packages/mmtbx/command_line/mon_lib_cif_triage.py usr/lib/python3.14/dist-packages/mmtbx/command_line/mp_geo.py usr/lib/python3.14/dist-packages/mmtbx/command_line/mp_validate_bonds.py usr/lib/python3.14/dist-packages/mmtbx/command_line/mtz2map.py usr/lib/python3.14/dist-packages/mmtbx/command_line/next_gen_atom_typing.py usr/lib/python3.14/dist-packages/mmtbx/command_line/nonbonded_overlaps.py usr/lib/python3.14/dist-packages/mmtbx/command_line/omegalyze.py usr/lib/python3.14/dist-packages/mmtbx/command_line/pdb_atom_selection.py usr/lib/python3.14/dist-packages/mmtbx/command_line/pdb_interpretation.py usr/lib/python3.14/dist-packages/mmtbx/command_line/pdbtools.py usr/lib/python3.14/dist-packages/mmtbx/command_line/perigee.py usr/lib/python3.14/dist-packages/mmtbx/command_line/plan_sad_experiment.py usr/lib/python3.14/dist-packages/mmtbx/command_line/polder.py usr/lib/python3.14/dist-packages/mmtbx/command_line/prepare_pdb_deposition.py usr/lib/python3.14/dist-packages/mmtbx/command_line/probe2.py usr/lib/python3.14/dist-packages/mmtbx/command_line/probescore_ligand.py usr/lib/python3.14/dist-packages/mmtbx/command_line/process_predicted_model.py usr/lib/python3.14/dist-packages/mmtbx/command_line/prune_model.py usr/lib/python3.14/dist-packages/mmtbx/command_line/quantum_interface.py usr/lib/python3.14/dist-packages/mmtbx/command_line/r_factor_statistics.py usr/lib/python3.14/dist-packages/mmtbx/command_line/rama_z.py usr/lib/python3.14/dist-packages/mmtbx/command_line/ramalyze.py usr/lib/python3.14/dist-packages/mmtbx/command_line/rank_scale_map.py usr/lib/python3.14/dist-packages/mmtbx/command_line/real_space_correlation.py usr/lib/python3.14/dist-packages/mmtbx/command_line/real_space_diff_map.py usr/lib/python3.14/dist-packages/mmtbx/command_line/rebuild_cablam_cache.py usr/lib/python3.14/dist-packages/mmtbx/command_line/rebuild_rotarama_cache.py usr/lib/python3.14/dist-packages/mmtbx/command_line/reciprocal_space_arrays.py usr/lib/python3.14/dist-packages/mmtbx/command_line/reduce2.py usr/lib/python3.14/dist-packages/mmtbx/command_line/reduce_cryoem_resolution.py usr/lib/python3.14/dist-packages/mmtbx/command_line/refine_anomalous_substructure.py usr/lib/python3.14/dist-packages/mmtbx/command_line/remove_outliers.py usr/lib/python3.14/dist-packages/mmtbx/command_line/ribbons.py usr/lib/python3.14/dist-packages/mmtbx/command_line/rigid_bond_test.py usr/lib/python3.14/dist-packages/mmtbx/command_line/ringer.py usr/lib/python3.14/dist-packages/mmtbx/command_line/rna_validate.py usr/lib/python3.14/dist-packages/mmtbx/command_line/rna_validate_bonds.py usr/lib/python3.14/dist-packages/mmtbx/command_line/rna_validate_puckers.py usr/lib/python3.14/dist-packages/mmtbx/command_line/rna_validate_suites.py usr/lib/python3.14/dist-packages/mmtbx/command_line/rotalyze.py usr/lib/python3.14/dist-packages/mmtbx/command_line/search_pdb_symmetry.py usr/lib/python3.14/dist-packages/mmtbx/command_line/secondary_structure_restraints.py usr/lib/python3.14/dist-packages/mmtbx/command_line/secondary_structure_validation.py usr/lib/python3.14/dist-packages/mmtbx/command_line/select_best_starting_model.py usr/lib/python3.14/dist-packages/mmtbx/command_line/show_r_factors_by_shell.py usr/lib/python3.14/dist-packages/mmtbx/command_line/sisa.py usr/lib/python3.14/dist-packages/mmtbx/command_line/sort_hetatms.py usr/lib/python3.14/dist-packages/mmtbx/command_line/ss_idealization.py usr/lib/python3.14/dist-packages/mmtbx/command_line/suitename.py usr/lib/python3.14/dist-packages/mmtbx/command_line/suitename_old.py usr/lib/python3.14/dist-packages/mmtbx/command_line/super.py usr/lib/python3.14/dist-packages/mmtbx/command_line/superpose.py usr/lib/python3.14/dist-packages/mmtbx/command_line/taam_minus_iam.py usr/lib/python3.14/dist-packages/mmtbx/command_line/table_one.py usr/lib/python3.14/dist-packages/mmtbx/command_line/tls.py usr/lib/python3.14/dist-packages/mmtbx/command_line/tls_analysis.py usr/lib/python3.14/dist-packages/mmtbx/command_line/tls_as_xyz.py usr/lib/python3.14/dist-packages/mmtbx/command_line/undowser.py usr/lib/python3.14/dist-packages/mmtbx/command_line/undowser2.py usr/lib/python3.14/dist-packages/mmtbx/command_line/validate_H_cl_app.py usr/lib/python3.14/dist-packages/mmtbx/command_line/validate_ligands.py usr/lib/python3.14/dist-packages/mmtbx/command_line/validation_summary.py usr/lib/python3.14/dist-packages/mmtbx/command_line/verify_mon_lib_data.py usr/lib/python3.14/dist-packages/mmtbx/command_line/water_b_factors.py usr/lib/python3.14/dist-packages/mmtbx/command_line/where_is_that_cif_file.py usr/lib/python3.14/dist-packages/mmtbx/command_line/xmanip.py usr/lib/python3.14/dist-packages/mmtbx/command_line/xtrapol8.py usr/lib/python3.14/dist-packages/mmtbx/command_line/xtriage.py usr/lib/python3.14/dist-packages/mmtbx/conformation_dependent_library/ usr/lib/python3.14/dist-packages/mmtbx/conformation_dependent_library/LinkedResidues.py usr/lib/python3.14/dist-packages/mmtbx/conformation_dependent_library/__init__.py usr/lib/python3.14/dist-packages/mmtbx/conformation_dependent_library/altloc_weighting.py usr/lib/python3.14/dist-packages/mmtbx/conformation_dependent_library/bond_angle_registry.py usr/lib/python3.14/dist-packages/mmtbx/conformation_dependent_library/cdl_database.py usr/lib/python3.14/dist-packages/mmtbx/conformation_dependent_library/cdl_setup.py usr/lib/python3.14/dist-packages/mmtbx/conformation_dependent_library/cdl_svl_database.py usr/lib/python3.14/dist-packages/mmtbx/conformation_dependent_library/cdl_utils.py usr/lib/python3.14/dist-packages/mmtbx/conformation_dependent_library/check_cdl_database.py usr/lib/python3.14/dist-packages/mmtbx/conformation_dependent_library/density_dependent_restraints.py usr/lib/python3.14/dist-packages/mmtbx/conformation_dependent_library/enol_peptide_restraints.py usr/lib/python3.14/dist-packages/mmtbx/conformation_dependent_library/histidines.py usr/lib/python3.14/dist-packages/mmtbx/conformation_dependent_library/hpdl_database.py usr/lib/python3.14/dist-packages/mmtbx/conformation_dependent_library/hydrogen_bonding.py usr/lib/python3.14/dist-packages/mmtbx/conformation_dependent_library/investigate_rotamer_space.py usr/lib/python3.14/dist-packages/mmtbx/conformation_dependent_library/mcl.py usr/lib/python3.14/dist-packages/mmtbx/conformation_dependent_library/mcl_sf4_coordination.py usr/lib/python3.14/dist-packages/mmtbx/conformation_dependent_library/metal_coordination_library.py usr/lib/python3.14/dist-packages/mmtbx/conformation_dependent_library/multi_base_class.py usr/lib/python3.14/dist-packages/mmtbx/conformation_dependent_library/multi_residue_cdl_class.py usr/lib/python3.14/dist-packages/mmtbx/conformation_dependent_library/multi_residue_class.py usr/lib/python3.14/dist-packages/mmtbx/conformation_dependent_library/nucleotides.py usr/lib/python3.14/dist-packages/mmtbx/conformation_dependent_library/omega.py usr/lib/python3.14/dist-packages/mmtbx/conformation_dependent_library/omega_database.py usr/lib/python3.14/dist-packages/mmtbx/conformation_dependent_library/pH_dependent_restraints.py usr/lib/python3.14/dist-packages/mmtbx/conformation_dependent_library/rdl_database.py usr/lib/python3.14/dist-packages/mmtbx/conformation_dependent_library/rotamers.py usr/lib/python3.14/dist-packages/mmtbx/conformation_dependent_library/sf4_restraints.py usr/lib/python3.14/dist-packages/mmtbx/conformation_dependent_library/testing_utils.py usr/lib/python3.14/dist-packages/mmtbx/conformation_dependent_library/tst_cdl.py usr/lib/python3.14/dist-packages/mmtbx/conformation_dependent_library/tst_cdl_esd.py usr/lib/python3.14/dist-packages/mmtbx/conformation_dependent_library/tst_cdl_nucleotides.py usr/lib/python3.14/dist-packages/mmtbx/conformation_dependent_library/tst_cis_c_n_ca.py usr/lib/python3.14/dist-packages/mmtbx/conformation_dependent_library/tst_enol_peptide.py usr/lib/python3.14/dist-packages/mmtbx/conformation_dependent_library/tst_hpdl.py usr/lib/python3.14/dist-packages/mmtbx/conformation_dependent_library/tst_mcl_01.py usr/lib/python3.14/dist-packages/mmtbx/conformation_dependent_library/tst_mcl_02.py usr/lib/python3.14/dist-packages/mmtbx/conformation_dependent_library/tst_mcl_03.py usr/lib/python3.14/dist-packages/mmtbx/conformation_dependent_library/tst_multi_residue_rna.py usr/lib/python3.14/dist-packages/mmtbx/conformation_dependent_library/tst_mutli_residue.py usr/lib/python3.14/dist-packages/mmtbx/conformation_dependent_library/tst_omega_cdl.py usr/lib/python3.14/dist-packages/mmtbx/conformation_dependent_library/tst_pH_mechanism.py usr/lib/python3.14/dist-packages/mmtbx/conformation_dependent_library/tst_poly_ca_multi_residue.py usr/lib/python3.14/dist-packages/mmtbx/conformation_dependent_library/tst_rdl.py usr/lib/python3.14/dist-packages/mmtbx/conformation_dependent_library/tst_rna_dna_fragments.py usr/lib/python3.14/dist-packages/mmtbx/conformation_dependent_library/utils.py usr/lib/python3.14/dist-packages/mmtbx/den/ usr/lib/python3.14/dist-packages/mmtbx/den/__init__.py usr/lib/python3.14/dist-packages/mmtbx/den/plot_weights.py usr/lib/python3.14/dist-packages/mmtbx/den/refinement.py usr/lib/python3.14/dist-packages/mmtbx/density_modification/ usr/lib/python3.14/dist-packages/mmtbx/density_modification/__init__.py usr/lib/python3.14/dist-packages/mmtbx/density_modification/tst_density_modification.py usr/lib/python3.14/dist-packages/mmtbx/disorder/ usr/lib/python3.14/dist-packages/mmtbx/disorder/__init__.py usr/lib/python3.14/dist-packages/mmtbx/disorder/analyze_model.py usr/lib/python3.14/dist-packages/mmtbx/disorder/backbone.py usr/lib/python3.14/dist-packages/mmtbx/disorder/tst.py usr/lib/python3.14/dist-packages/mmtbx/disorder/tst_analyze_model.py usr/lib/python3.14/dist-packages/mmtbx/disorder/tst_backbone.py usr/lib/python3.14/dist-packages/mmtbx/dynamics/ usr/lib/python3.14/dist-packages/mmtbx/dynamics/__init__.py usr/lib/python3.14/dist-packages/mmtbx/dynamics/cartesian_dynamics.py usr/lib/python3.14/dist-packages/mmtbx/dynamics/constants.py usr/lib/python3.14/dist-packages/mmtbx/dynamics/ensemble_cd.py usr/lib/python3.14/dist-packages/mmtbx/dynamics/simulated_annealing.py usr/lib/python3.14/dist-packages/mmtbx/dynamics/tst_cartesian_dynamics.py usr/lib/python3.14/dist-packages/mmtbx/dynamics/tst_sa.py usr/lib/python3.14/dist-packages/mmtbx/f_model/ usr/lib/python3.14/dist-packages/mmtbx/f_model/__init__.py usr/lib/python3.14/dist-packages/mmtbx/f_model/f_model.py usr/lib/python3.14/dist-packages/mmtbx/f_model/f_model_info.py usr/lib/python3.14/dist-packages/mmtbx/geometry/ usr/lib/python3.14/dist-packages/mmtbx/geometry/__init__.py usr/lib/python3.14/dist-packages/mmtbx/geometry/altloc.py usr/lib/python3.14/dist-packages/mmtbx/geometry/asa.py usr/lib/python3.14/dist-packages/mmtbx/geometry/clash.py usr/lib/python3.14/dist-packages/mmtbx/geometry/indexing.py usr/lib/python3.14/dist-packages/mmtbx/geometry/shared_types.py usr/lib/python3.14/dist-packages/mmtbx/geometry/sphere_surface_sampling.py usr/lib/python3.14/dist-packages/mmtbx/geometry/topology.py usr/lib/python3.14/dist-packages/mmtbx/geometry_restraints/ usr/lib/python3.14/dist-packages/mmtbx/geometry_restraints/__init__.py usr/lib/python3.14/dist-packages/mmtbx/geometry_restraints/afitt.py usr/lib/python3.14/dist-packages/mmtbx/geometry_restraints/base_qm_manager.py usr/lib/python3.14/dist-packages/mmtbx/geometry_restraints/c_beta.py usr/lib/python3.14/dist-packages/mmtbx/geometry_restraints/external.py usr/lib/python3.14/dist-packages/mmtbx/geometry_restraints/geo_file_parsing.py usr/lib/python3.14/dist-packages/mmtbx/geometry_restraints/mopac_manager.py usr/lib/python3.14/dist-packages/mmtbx/geometry_restraints/orca_manager.py usr/lib/python3.14/dist-packages/mmtbx/geometry_restraints/qi_utils.py usr/lib/python3.14/dist-packages/mmtbx/geometry_restraints/qm_manager.py usr/lib/python3.14/dist-packages/mmtbx/geometry_restraints/quantum_interface.py usr/lib/python3.14/dist-packages/mmtbx/geometry_restraints/quantum_restraints_manager.py usr/lib/python3.14/dist-packages/mmtbx/geometry_restraints/ramachandran.py usr/lib/python3.14/dist-packages/mmtbx/geometry_restraints/reference.py usr/lib/python3.14/dist-packages/mmtbx/geometry_restraints/tst_c_beta_restraints.py usr/lib/python3.14/dist-packages/mmtbx/geometry_restraints/tst_geo_file_parsing.py usr/lib/python3.14/dist-packages/mmtbx/geometry_restraints/tst_manager.py usr/lib/python3.14/dist-packages/mmtbx/geometry_restraints/tst_ramachandran.py usr/lib/python3.14/dist-packages/mmtbx/geometry_restraints/tst_reference_coordinate.py usr/lib/python3.14/dist-packages/mmtbx/geometry_restraints/tst_reference_coordinate2.py usr/lib/python3.14/dist-packages/mmtbx/geometry_restraints/torsion_restraints/ usr/lib/python3.14/dist-packages/mmtbx/geometry_restraints/torsion_restraints/__init__.py usr/lib/python3.14/dist-packages/mmtbx/geometry_restraints/torsion_restraints/reference_model.py usr/lib/python3.14/dist-packages/mmtbx/geometry_restraints/torsion_restraints/rotamer_search.py usr/lib/python3.14/dist-packages/mmtbx/geometry_restraints/torsion_restraints/torsion_ncs.py usr/lib/python3.14/dist-packages/mmtbx/geometry_restraints/torsion_restraints/tst_reference_model.py usr/lib/python3.14/dist-packages/mmtbx/geometry_restraints/torsion_restraints/tst_reference_model_ligands.py usr/lib/python3.14/dist-packages/mmtbx/geometry_restraints/torsion_restraints/tst_torsion_ncs.py usr/lib/python3.14/dist-packages/mmtbx/geometry_restraints/torsion_restraints/utils.py usr/lib/python3.14/dist-packages/mmtbx/hydrogens/ usr/lib/python3.14/dist-packages/mmtbx/hydrogens/__init__.py usr/lib/python3.14/dist-packages/mmtbx/hydrogens/build_hydrogens.py usr/lib/python3.14/dist-packages/mmtbx/hydrogens/connectivity.py usr/lib/python3.14/dist-packages/mmtbx/hydrogens/find.py usr/lib/python3.14/dist-packages/mmtbx/hydrogens/neutron_utils.py usr/lib/python3.14/dist-packages/mmtbx/hydrogens/parameterization.py usr/lib/python3.14/dist-packages/mmtbx/hydrogens/reduce_hydrogen.py usr/lib/python3.14/dist-packages/mmtbx/hydrogens/riding.py usr/lib/python3.14/dist-packages/mmtbx/hydrogens/specialised_hydrogen_atoms.py usr/lib/python3.14/dist-packages/mmtbx/hydrogens/tst.py usr/lib/python3.14/dist-packages/mmtbx/hydrogens/tst_add_hydrogen.py usr/lib/python3.14/dist-packages/mmtbx/hydrogens/tst_add_hydrogen_0.py usr/lib/python3.14/dist-packages/mmtbx/hydrogens/tst_add_hydrogen_1.py usr/lib/python3.14/dist-packages/mmtbx/hydrogens/tst_add_hydrogen_2.py usr/lib/python3.14/dist-packages/mmtbx/hydrogens/tst_add_hydrogen_3.py usr/lib/python3.14/dist-packages/mmtbx/hydrogens/tst_add_hydrogen_4.py usr/lib/python3.14/dist-packages/mmtbx/hydrogens/tst_add_hydrogen_5.py usr/lib/python3.14/dist-packages/mmtbx/hydrogens/tst_add_hydrogen_6.py usr/lib/python3.14/dist-packages/mmtbx/hydrogens/tst_add_hydrogen_7.py usr/lib/python3.14/dist-packages/mmtbx/hydrogens/tst_add_hydrogen_8.py usr/lib/python3.14/dist-packages/mmtbx/hydrogens/tst_add_hydrogen_9.py usr/lib/python3.14/dist-packages/mmtbx/hydrogens/tst_add_hydrogen_time.py usr/lib/python3.14/dist-packages/mmtbx/hydrogens/tst_connectivity.py usr/lib/python3.14/dist-packages/mmtbx/hydrogens/tst_parameterization_1.py usr/lib/python3.14/dist-packages/mmtbx/hydrogens/tst_parameterization_2.py usr/lib/python3.14/dist-packages/mmtbx/hydrogens/tst_parameterization_3.py usr/lib/python3.14/dist-packages/mmtbx/hydrogens/tst_parameterization_4.py usr/lib/python3.14/dist-packages/mmtbx/hydrogens/tst_parameterization_5.py usr/lib/python3.14/dist-packages/mmtbx/hydrogens/tst_parameterization_6.py usr/lib/python3.14/dist-packages/mmtbx/hydrogens/tst_parameterization_7.py usr/lib/python3.14/dist-packages/mmtbx/hydrogens/tst_parameterization_8.py usr/lib/python3.14/dist-packages/mmtbx/hydrogens/tst_parameterization_9.py usr/lib/python3.14/dist-packages/mmtbx/hydrogens/tst_riding_coefficients.py usr/lib/python3.14/dist-packages/mmtbx/hydrogens/tst_riding_fd_1.py usr/lib/python3.14/dist-packages/mmtbx/hydrogens/tst_riding_fd_2.py usr/lib/python3.14/dist-packages/mmtbx/hydrogens/tst_riding_fd_3.py usr/lib/python3.14/dist-packages/mmtbx/hydrogens/tst_riding_fd_4.py usr/lib/python3.14/dist-packages/mmtbx/hydrogens/tst_riding_fd_5.py usr/lib/python3.14/dist-packages/mmtbx/hydrogens/tst_riding_manager.py usr/lib/python3.14/dist-packages/mmtbx/hydrogens/tst_riding_minimize.py usr/lib/python3.14/dist-packages/mmtbx/hydrogens/tst_validate_H.py usr/lib/python3.14/dist-packages/mmtbx/hydrogens/validate_H.py usr/lib/python3.14/dist-packages/mmtbx/ias/ usr/lib/python3.14/dist-packages/mmtbx/ias/__init__.py usr/lib/python3.14/dist-packages/mmtbx/ias/tst_ias.py usr/lib/python3.14/dist-packages/mmtbx/idealized_aa_residues/ usr/lib/python3.14/dist-packages/mmtbx/idealized_aa_residues/__init__.py usr/lib/python3.14/dist-packages/mmtbx/idealized_aa_residues/all_his.py usr/lib/python3.14/dist-packages/mmtbx/idealized_aa_residues/rotamer_manager.py usr/lib/python3.14/dist-packages/mmtbx/idealized_aa_residues/sample_rotamers.py usr/lib/python3.14/dist-packages/mmtbx/idealized_aa_residues/tst.py usr/lib/python3.14/dist-packages/mmtbx/ions/ usr/lib/python3.14/dist-packages/mmtbx/ions/__init__.py usr/lib/python3.14/dist-packages/mmtbx/ions/build.py usr/lib/python3.14/dist-packages/mmtbx/ions/environment.py usr/lib/python3.14/dist-packages/mmtbx/ions/geometry.py usr/lib/python3.14/dist-packages/mmtbx/ions/halides.py usr/lib/python3.14/dist-packages/mmtbx/ions/identify.py usr/lib/python3.14/dist-packages/mmtbx/ions/tst_environment.py usr/lib/python3.14/dist-packages/mmtbx/ions/tst_geometries.py usr/lib/python3.14/dist-packages/mmtbx/ions/tst_parameters.py usr/lib/python3.14/dist-packages/mmtbx/ions/tst_pick_approx_zn.py usr/lib/python3.14/dist-packages/mmtbx/ions/tst_pick_ca.py usr/lib/python3.14/dist-packages/mmtbx/ions/tst_pick_ca_svm.py usr/lib/python3.14/dist-packages/mmtbx/ions/tst_pick_k.py usr/lib/python3.14/dist-packages/mmtbx/ions/tst_pick_mg.py usr/lib/python3.14/dist-packages/mmtbx/ions/tst_pickle.py usr/lib/python3.14/dist-packages/mmtbx/ions/tst_symmetry_axis.py usr/lib/python3.14/dist-packages/mmtbx/ions/tst_utils.py usr/lib/python3.14/dist-packages/mmtbx/ions/tst_validate_ca.py usr/lib/python3.14/dist-packages/mmtbx/ions/tst_validate_mg.py usr/lib/python3.14/dist-packages/mmtbx/ions/utils.py usr/lib/python3.14/dist-packages/mmtbx/ions/svm/ usr/lib/python3.14/dist-packages/mmtbx/ions/svm/__init__.py usr/lib/python3.14/dist-packages/mmtbx/ions/svm/dump_sites.py usr/lib/python3.14/dist-packages/mmtbx/ions/svm/tst_classifier_01.py usr/lib/python3.14/dist-packages/mmtbx/ions/svm/tst_classifier_02.py usr/lib/python3.14/dist-packages/mmtbx/ions/svm/utils.py usr/lib/python3.14/dist-packages/mmtbx/kinemage/ usr/lib/python3.14/dist-packages/mmtbx/kinemage/__init__.py usr/lib/python3.14/dist-packages/mmtbx/kinemage/nrubs.py usr/lib/python3.14/dist-packages/mmtbx/kinemage/ribbons.py usr/lib/python3.14/dist-packages/mmtbx/kinemage/validation.py usr/lib/python3.14/dist-packages/mmtbx/ligands/ usr/lib/python3.14/dist-packages/mmtbx/ligands/__init__.py usr/lib/python3.14/dist-packages/mmtbx/ligands/chemistry.py usr/lib/python3.14/dist-packages/mmtbx/ligands/elbow_utils.py usr/lib/python3.14/dist-packages/mmtbx/ligands/electrons.py usr/lib/python3.14/dist-packages/mmtbx/ligands/hierarchy_utils.py usr/lib/python3.14/dist-packages/mmtbx/ligands/rdkit_utils.py usr/lib/python3.14/dist-packages/mmtbx/ligands/ready_set_basics.py usr/lib/python3.14/dist-packages/mmtbx/ligands/ready_set_utils.py usr/lib/python3.14/dist-packages/mmtbx/ligands/tst_electron_scripting.py usr/lib/python3.14/dist-packages/mmtbx/ligands/tst_ready_set_utils.py usr/lib/python3.14/dist-packages/mmtbx/ligands/tst_xtal_screens.py usr/lib/python3.14/dist-packages/mmtbx/ligands/xtal_screens.py usr/lib/python3.14/dist-packages/mmtbx/maps/ usr/lib/python3.14/dist-packages/mmtbx/maps/__init__.py usr/lib/python3.14/dist-packages/mmtbx/maps/composite_omit_map.py usr/lib/python3.14/dist-packages/mmtbx/maps/correlation.py usr/lib/python3.14/dist-packages/mmtbx/maps/fem.py usr/lib/python3.14/dist-packages/mmtbx/maps/fobs_minus_fobs_map.py usr/lib/python3.14/dist-packages/mmtbx/maps/kick.py usr/lib/python3.14/dist-packages/mmtbx/maps/map_model_cc.py usr/lib/python3.14/dist-packages/mmtbx/maps/mtriage.py usr/lib/python3.14/dist-packages/mmtbx/maps/polder.py usr/lib/python3.14/dist-packages/mmtbx/maps/superpose.py usr/lib/python3.14/dist-packages/mmtbx/maps/tst_composite_omit_map.py usr/lib/python3.14/dist-packages/mmtbx/maps/tst_composite_omit_map_2.py usr/lib/python3.14/dist-packages/mmtbx/maps/tst_composite_omit_map_3.py usr/lib/python3.14/dist-packages/mmtbx/maps/tst_correlation.py usr/lib/python3.14/dist-packages/mmtbx/maps/tst_map_model_cc_and_vals_per_atom_xtal.py usr/lib/python3.14/dist-packages/mmtbx/maps/utils.py usr/lib/python3.14/dist-packages/mmtbx/maps/xtrapol8.py usr/lib/python3.14/dist-packages/mmtbx/masks/ usr/lib/python3.14/dist-packages/mmtbx/masks/__init__.py usr/lib/python3.14/dist-packages/mmtbx/masks/tst_asu_mask.py usr/lib/python3.14/dist-packages/mmtbx/masks/tst_masks.py usr/lib/python3.14/dist-packages/mmtbx/max_lik/ usr/lib/python3.14/dist-packages/mmtbx/max_lik/__init__.py usr/lib/python3.14/dist-packages/mmtbx/max_lik/max_like_non_uniform.py usr/lib/python3.14/dist-packages/mmtbx/max_lik/maxlik.py usr/lib/python3.14/dist-packages/mmtbx/max_lik/tst_max_lik.py usr/lib/python3.14/dist-packages/mmtbx/max_lik/tst_maxlik.py usr/lib/python3.14/dist-packages/mmtbx/model/ usr/lib/python3.14/dist-packages/mmtbx/model/__init__.py usr/lib/python3.14/dist-packages/mmtbx/model/model.py usr/lib/python3.14/dist-packages/mmtbx/model/restraints.py usr/lib/python3.14/dist-packages/mmtbx/model/statistics.py usr/lib/python3.14/dist-packages/mmtbx/model/utils.py usr/lib/python3.14/dist-packages/mmtbx/monomer_library/ usr/lib/python3.14/dist-packages/mmtbx/monomer_library/__init__.py usr/lib/python3.14/dist-packages/mmtbx/monomer_library/bondlength_defaults.py usr/lib/python3.14/dist-packages/mmtbx/monomer_library/cif_triage.py usr/lib/python3.14/dist-packages/mmtbx/monomer_library/cif_types.py usr/lib/python3.14/dist-packages/mmtbx/monomer_library/conformation_dependent_restraints.py usr/lib/python3.14/dist-packages/mmtbx/monomer_library/conv_v2_v3.py usr/lib/python3.14/dist-packages/mmtbx/monomer_library/correct_hydrogen_geometries.py usr/lib/python3.14/dist-packages/mmtbx/monomer_library/geostd_utils.py usr/lib/python3.14/dist-packages/mmtbx/monomer_library/glyco_chiral_values.py usr/lib/python3.14/dist-packages/mmtbx/monomer_library/glyco_utils.py usr/lib/python3.14/dist-packages/mmtbx/monomer_library/hydrogen_restrictions.py usr/lib/python3.14/dist-packages/mmtbx/monomer_library/idealized_aa.py usr/lib/python3.14/dist-packages/mmtbx/monomer_library/linking_mixins.py usr/lib/python3.14/dist-packages/mmtbx/monomer_library/linking_setup.py usr/lib/python3.14/dist-packages/mmtbx/monomer_library/linking_utils.py usr/lib/python3.14/dist-packages/mmtbx/monomer_library/mmtbx_utils.py usr/lib/python3.14/dist-packages/mmtbx/monomer_library/pdb_interpretation.py usr/lib/python3.14/dist-packages/mmtbx/monomer_library/populate_auto_linking_origin_ids.py usr/lib/python3.14/dist-packages/mmtbx/monomer_library/rna_sugar_pucker_analysis.py usr/lib/python3.14/dist-packages/mmtbx/monomer_library/rotamer_utils.py usr/lib/python3.14/dist-packages/mmtbx/monomer_library/server.py usr/lib/python3.14/dist-packages/mmtbx/monomer_library/tst_all_cif_files.py usr/lib/python3.14/dist-packages/mmtbx/monomer_library/tst_carbo_linking.py usr/lib/python3.14/dist-packages/mmtbx/monomer_library/tst_chg.py usr/lib/python3.14/dist-packages/mmtbx/monomer_library/tst_cif_triage.py usr/lib/python3.14/dist-packages/mmtbx/monomer_library/tst_cif_types.py usr/lib/python3.14/dist-packages/mmtbx/monomer_library/tst_correct_hydrogens.py usr/lib/python3.14/dist-packages/mmtbx/monomer_library/tst_deuterium_terminii.py usr/lib/python3.14/dist-packages/mmtbx/monomer_library/tst_geo_reduce_for_tardy.py usr/lib/python3.14/dist-packages/mmtbx/monomer_library/tst_glyco_coordination.py usr/lib/python3.14/dist-packages/mmtbx/monomer_library/tst_glyco_hand.py usr/lib/python3.14/dist-packages/mmtbx/monomer_library/tst_idealized_aa.py usr/lib/python3.14/dist-packages/mmtbx/monomer_library/tst_iron_sulfur_clusters.py usr/lib/python3.14/dist-packages/mmtbx/monomer_library/tst_linking.py usr/lib/python3.14/dist-packages/mmtbx/monomer_library/tst_metal_coordination.py usr/lib/python3.14/dist-packages/mmtbx/monomer_library/tst_motif.py usr/lib/python3.14/dist-packages/mmtbx/monomer_library/tst_neutron_distance.py usr/lib/python3.14/dist-packages/mmtbx/monomer_library/tst_paral_geo.py usr/lib/python3.14/dist-packages/mmtbx/monomer_library/tst_pdb_interpretation.py usr/lib/python3.14/dist-packages/mmtbx/monomer_library/tst_pdb_interpretation_2.py usr/lib/python3.14/dist-packages/mmtbx/monomer_library/tst_pdb_interpretation_3.py usr/lib/python3.14/dist-packages/mmtbx/monomer_library/tst_pdb_interpretation_4.py usr/lib/python3.14/dist-packages/mmtbx/monomer_library/tst_pdb_interpretation_5.py usr/lib/python3.14/dist-packages/mmtbx/monomer_library/tst_pdb_interpretation_ncs_processing.py usr/lib/python3.14/dist-packages/mmtbx/monomer_library/tst_protein_interpretation.py usr/lib/python3.14/dist-packages/mmtbx/monomer_library/tst_rna_dna_interpretation.py usr/lib/python3.14/dist-packages/mmtbx/monomer_library/tst_rna_sugar_pucker_analysis.py usr/lib/python3.14/dist-packages/mmtbx/monomer_library/tst_rotamer_utils.py usr/lib/python3.14/dist-packages/mmtbx/monomer_library/tst_selection.py usr/lib/python3.14/dist-packages/mmtbx/monomer_library/tst_server.py usr/lib/python3.14/dist-packages/mmtbx/monomer_library/tst_superpose_ideal.py usr/lib/python3.14/dist-packages/mmtbx/monomer_library/tst_tyr_from_gly_and_bnz.py usr/lib/python3.14/dist-packages/mmtbx/monomer_library/tst_user_supplied_library.py usr/lib/python3.14/dist-packages/mmtbx/nci/ usr/lib/python3.14/dist-packages/mmtbx/nci/__init__.py usr/lib/python3.14/dist-packages/mmtbx/nci/data_filtering.py usr/lib/python3.14/dist-packages/mmtbx/nci/hbond.py usr/lib/python3.14/dist-packages/mmtbx/nci/skew_kurt_plot.py usr/lib/python3.14/dist-packages/mmtbx/nci/tst_hbond.py usr/lib/python3.14/dist-packages/mmtbx/ncs/ usr/lib/python3.14/dist-packages/mmtbx/ncs/__init__.py usr/lib/python3.14/dist-packages/mmtbx/ncs/cartesian_restraints.py usr/lib/python3.14/dist-packages/mmtbx/ncs/ligands.py usr/lib/python3.14/dist-packages/mmtbx/ncs/ncs.py usr/lib/python3.14/dist-packages/mmtbx/ncs/ncs_params.py usr/lib/python3.14/dist-packages/mmtbx/ncs/ncs_restraints_group_list.py usr/lib/python3.14/dist-packages/mmtbx/ncs/ncs_search.py usr/lib/python3.14/dist-packages/mmtbx/ncs/ncs_utils.py usr/lib/python3.14/dist-packages/mmtbx/ncs/tncs.py usr/lib/python3.14/dist-packages/mmtbx/pair_interaction/ usr/lib/python3.14/dist-packages/mmtbx/pair_interaction/__init__.py usr/lib/python3.14/dist-packages/mmtbx/pair_interaction/pair_interaction.py usr/lib/python3.14/dist-packages/mmtbx/pair_interaction/tst_00.py usr/lib/python3.14/dist-packages/mmtbx/pair_interaction/tst_01.py usr/lib/python3.14/dist-packages/mmtbx/pair_interaction/tst_02.py usr/lib/python3.14/dist-packages/mmtbx/pair_interaction/tst_03.py usr/lib/python3.14/dist-packages/mmtbx/pair_interaction/tst_04.py usr/lib/python3.14/dist-packages/mmtbx/pair_interaction/tst_05.py usr/lib/python3.14/dist-packages/mmtbx/polygon/ usr/lib/python3.14/dist-packages/mmtbx/polygon/__init__.py usr/lib/python3.14/dist-packages/mmtbx/polygon/output.py usr/lib/python3.14/dist-packages/mmtbx/polygon/tst.py usr/lib/python3.14/dist-packages/mmtbx/polygon/tst_gui.py usr/lib/python3.14/dist-packages/mmtbx/polygon/tst_polygon_data.py usr/lib/python3.14/dist-packages/mmtbx/probe/ usr/lib/python3.14/dist-packages/mmtbx/probe/AtomTypes.py usr/lib/python3.14/dist-packages/mmtbx/probe/CompareOriginalAndNewProbeAtomInfo.py usr/lib/python3.14/dist-packages/mmtbx/probe/Helpers.py usr/lib/python3.14/dist-packages/mmtbx/probe/__init__.py usr/lib/python3.14/dist-packages/mmtbx/probe/tst_mmtbx_probe_ext.py usr/lib/python3.14/dist-packages/mmtbx/programs/ usr/lib/python3.14/dist-packages/mmtbx/programs/__init__.py usr/lib/python3.14/dist-packages/mmtbx/programs/arginine_geometry.py usr/lib/python3.14/dist-packages/mmtbx/programs/atom_selection.py usr/lib/python3.14/dist-packages/mmtbx/programs/atom_valence_simple.py usr/lib/python3.14/dist-packages/mmtbx/programs/barbed_wire_analysis.py usr/lib/python3.14/dist-packages/mmtbx/programs/cablam.py usr/lib/python3.14/dist-packages/mmtbx/programs/cablam_idealization.py usr/lib/python3.14/dist-packages/mmtbx/programs/cbetadev.py usr/lib/python3.14/dist-packages/mmtbx/programs/chiral_validation.py usr/lib/python3.14/dist-packages/mmtbx/programs/clashscore.py usr/lib/python3.14/dist-packages/mmtbx/programs/clashscore2.py usr/lib/python3.14/dist-packages/mmtbx/programs/comparama.py usr/lib/python3.14/dist-packages/mmtbx/programs/debug_riding.py usr/lib/python3.14/dist-packages/mmtbx/programs/elbow_services.py usr/lib/python3.14/dist-packages/mmtbx/programs/emringer.py usr/lib/python3.14/dist-packages/mmtbx/programs/fetch.py usr/lib/python3.14/dist-packages/mmtbx/programs/fmodel.py usr/lib/python3.14/dist-packages/mmtbx/programs/hbond.py usr/lib/python3.14/dist-packages/mmtbx/programs/holton_geometry_validation.py usr/lib/python3.14/dist-packages/mmtbx/programs/hydrogenate.py usr/lib/python3.14/dist-packages/mmtbx/programs/ligand_restraints_validation.py usr/lib/python3.14/dist-packages/mmtbx/programs/mask.py usr/lib/python3.14/dist-packages/mmtbx/programs/matthews.py usr/lib/python3.14/dist-packages/mmtbx/programs/model_vs_sequence.py usr/lib/python3.14/dist-packages/mmtbx/programs/mp_validate_bonds.py usr/lib/python3.14/dist-packages/mmtbx/programs/next_gen_atom_typing.py usr/lib/python3.14/dist-packages/mmtbx/programs/nonbonded_overlaps.py usr/lib/python3.14/dist-packages/mmtbx/programs/omegalyze.py usr/lib/python3.14/dist-packages/mmtbx/programs/pdb_as_cif.py usr/lib/python3.14/dist-packages/mmtbx/programs/pdbtools.py usr/lib/python3.14/dist-packages/mmtbx/programs/polder.py usr/lib/python3.14/dist-packages/mmtbx/programs/prepare_pdb_deposition.py usr/lib/python3.14/dist-packages/mmtbx/programs/probe2.py usr/lib/python3.14/dist-packages/mmtbx/programs/probescore_ligand.py usr/lib/python3.14/dist-packages/mmtbx/programs/process_predicted_model.py usr/lib/python3.14/dist-packages/mmtbx/programs/quantum_interface.py usr/lib/python3.14/dist-packages/mmtbx/programs/rama_z.py usr/lib/python3.14/dist-packages/mmtbx/programs/ramalyze.py usr/lib/python3.14/dist-packages/mmtbx/programs/real_space_correlation.py usr/lib/python3.14/dist-packages/mmtbx/programs/reduce2.py usr/lib/python3.14/dist-packages/mmtbx/programs/reduce_cryoem_resolution.py usr/lib/python3.14/dist-packages/mmtbx/programs/ribbons.py usr/lib/python3.14/dist-packages/mmtbx/programs/rna_validate.py usr/lib/python3.14/dist-packages/mmtbx/programs/rna_validate_bonds.py usr/lib/python3.14/dist-packages/mmtbx/programs/rna_validate_puckers.py usr/lib/python3.14/dist-packages/mmtbx/programs/rna_validate_suites.py usr/lib/python3.14/dist-packages/mmtbx/programs/rotalyze.py usr/lib/python3.14/dist-packages/mmtbx/programs/ss_idealization.py usr/lib/python3.14/dist-packages/mmtbx/programs/ss_validation.py usr/lib/python3.14/dist-packages/mmtbx/programs/suitename.py usr/lib/python3.14/dist-packages/mmtbx/programs/suitename_old.py usr/lib/python3.14/dist-packages/mmtbx/programs/taam_minus_iam.py usr/lib/python3.14/dist-packages/mmtbx/programs/undowser.py usr/lib/python3.14/dist-packages/mmtbx/programs/undowser2.py usr/lib/python3.14/dist-packages/mmtbx/programs/validate_ligands.py usr/lib/python3.14/dist-packages/mmtbx/programs/water_b_factors.py usr/lib/python3.14/dist-packages/mmtbx/programs/xtrapol8.py usr/lib/python3.14/dist-packages/mmtbx/real_space/ usr/lib/python3.14/dist-packages/mmtbx/real_space/__init__.py usr/lib/python3.14/dist-packages/mmtbx/real_space/tst.py usr/lib/python3.14/dist-packages/mmtbx/reduce/ usr/lib/python3.14/dist-packages/mmtbx/reduce/InteractionGraph.py usr/lib/python3.14/dist-packages/mmtbx/reduce/Movers.py usr/lib/python3.14/dist-packages/mmtbx/reduce/Optimizers.py usr/lib/python3.14/dist-packages/mmtbx/reduce/__init__.py usr/lib/python3.14/dist-packages/mmtbx/reduce/tst_mmtbx_reduce_ext.py usr/lib/python3.14/dist-packages/mmtbx/refinement/ usr/lib/python3.14/dist-packages/mmtbx/refinement/__init__.py usr/lib/python3.14/dist-packages/mmtbx/refinement/adp_refinement.py usr/lib/python3.14/dist-packages/mmtbx/refinement/anomalous_scatterer_groups.py usr/lib/python3.14/dist-packages/mmtbx/refinement/calculators.py usr/lib/python3.14/dist-packages/mmtbx/refinement/data.py usr/lib/python3.14/dist-packages/mmtbx/refinement/energy_monitor.py usr/lib/python3.14/dist-packages/mmtbx/refinement/flip_peptide_side_chain.py usr/lib/python3.14/dist-packages/mmtbx/refinement/geometry_minimization.py usr/lib/python3.14/dist-packages/mmtbx/refinement/group.py usr/lib/python3.14/dist-packages/mmtbx/refinement/inspect_tardy_trajectory.py usr/lib/python3.14/dist-packages/mmtbx/refinement/minimization.py usr/lib/python3.14/dist-packages/mmtbx/refinement/minimization_monitor.py usr/lib/python3.14/dist-packages/mmtbx/refinement/minimization_ncs_constraints.py usr/lib/python3.14/dist-packages/mmtbx/refinement/occupancies.py usr/lib/python3.14/dist-packages/mmtbx/refinement/orca.py usr/lib/python3.14/dist-packages/mmtbx/refinement/print_statistics.py usr/lib/python3.14/dist-packages/mmtbx/refinement/refinement_flags.py usr/lib/python3.14/dist-packages/mmtbx/refinement/restraints.py usr/lib/python3.14/dist-packages/mmtbx/refinement/rigid_body.py usr/lib/python3.14/dist-packages/mmtbx/refinement/select_best_starting_model.py usr/lib/python3.14/dist-packages/mmtbx/refinement/tardy.py usr/lib/python3.14/dist-packages/mmtbx/refinement/targets.py usr/lib/python3.14/dist-packages/mmtbx/refinement/tst_anomalous_scatterer_groups.py usr/lib/python3.14/dist-packages/mmtbx/refinement/tst_fit_rotamers.py usr/lib/python3.14/dist-packages/mmtbx/refinement/tst_group.py usr/lib/python3.14/dist-packages/mmtbx/refinement/tst_group_2.py usr/lib/python3.14/dist-packages/mmtbx/refinement/tst_misc.py usr/lib/python3.14/dist-packages/mmtbx/refinement/tst_occupancy_selections.py usr/lib/python3.14/dist-packages/mmtbx/refinement/tst_real_space_simple.py usr/lib/python3.14/dist-packages/mmtbx/refinement/tst_refinement_flags.py usr/lib/python3.14/dist-packages/mmtbx/refinement/tst_rigid_body.py usr/lib/python3.14/dist-packages/mmtbx/refinement/tst_rigid_body_groups_from_pdb_chains.py usr/lib/python3.14/dist-packages/mmtbx/refinement/tst_select_best_starting_model.py usr/lib/python3.14/dist-packages/mmtbx/refinement/utils.py usr/lib/python3.14/dist-packages/mmtbx/refinement/weights.py usr/lib/python3.14/dist-packages/mmtbx/refinement/weights_params.py usr/lib/python3.14/dist-packages/mmtbx/refinement/wrappers.py usr/lib/python3.14/dist-packages/mmtbx/refinement/wx_tardy_pdb.py usr/lib/python3.14/dist-packages/mmtbx/refinement/ensemble_refinement/ usr/lib/python3.14/dist-packages/mmtbx/refinement/ensemble_refinement/__init__.py usr/lib/python3.14/dist-packages/mmtbx/refinement/ensemble_refinement/ensemble_probability.py usr/lib/python3.14/dist-packages/mmtbx/refinement/ensemble_refinement/ensemble_utils.py usr/lib/python3.14/dist-packages/mmtbx/refinement/real_space/ usr/lib/python3.14/dist-packages/mmtbx/refinement/real_space/__init__.py usr/lib/python3.14/dist-packages/mmtbx/refinement/real_space/adp.py usr/lib/python3.14/dist-packages/mmtbx/refinement/real_space/explode_and_refine.py usr/lib/python3.14/dist-packages/mmtbx/refinement/real_space/fit_his.py usr/lib/python3.14/dist-packages/mmtbx/refinement/real_space/fit_residue.py usr/lib/python3.14/dist-packages/mmtbx/refinement/real_space/fit_residues.py usr/lib/python3.14/dist-packages/mmtbx/refinement/real_space/fit_small_molecule.py usr/lib/python3.14/dist-packages/mmtbx/refinement/real_space/fit_water.py usr/lib/python3.14/dist-packages/mmtbx/refinement/real_space/individual_sites.py usr/lib/python3.14/dist-packages/mmtbx/refinement/real_space/occupancy.py usr/lib/python3.14/dist-packages/mmtbx/refinement/real_space/rigid_body.py usr/lib/python3.14/dist-packages/mmtbx/refinement/real_space/tst_aa_residue_axes_and_clusters.py usr/lib/python3.14/dist-packages/mmtbx/refinement/real_space/tst_fit_residue_0.py usr/lib/python3.14/dist-packages/mmtbx/refinement/real_space/tst_fit_residue_0H.py usr/lib/python3.14/dist-packages/mmtbx/refinement/real_space/tst_fit_residue_1.py usr/lib/python3.14/dist-packages/mmtbx/refinement/real_space/tst_fit_residue_1H.py usr/lib/python3.14/dist-packages/mmtbx/refinement/real_space/tst_fit_residue_2.py usr/lib/python3.14/dist-packages/mmtbx/refinement/real_space/tst_fit_residue_3.py usr/lib/python3.14/dist-packages/mmtbx/refinement/real_space/tst_fit_residue_4.py usr/lib/python3.14/dist-packages/mmtbx/refinement/real_space/tst_fit_residue_5.py usr/lib/python3.14/dist-packages/mmtbx/refinement/real_space/tst_fit_residue_6.py usr/lib/python3.14/dist-packages/mmtbx/refinement/real_space/tst_fit_residue_7.py usr/lib/python3.14/dist-packages/mmtbx/refinement/real_space/tst_fit_residue_full_sampling.py usr/lib/python3.14/dist-packages/mmtbx/refinement/real_space/tst_fit_residues_1.py usr/lib/python3.14/dist-packages/mmtbx/refinement/real_space/tst_fit_residues_1H.py usr/lib/python3.14/dist-packages/mmtbx/refinement/real_space/tst_fit_residues_2.py usr/lib/python3.14/dist-packages/mmtbx/refinement/real_space/tst_fit_residues_3.py usr/lib/python3.14/dist-packages/mmtbx/refinement/real_space/tst_fit_residues_4.py usr/lib/python3.14/dist-packages/mmtbx/refinement/real_space/tst_fit_residues_5.py usr/lib/python3.14/dist-packages/mmtbx/refinement/real_space/tst_fit_residues_6.py usr/lib/python3.14/dist-packages/mmtbx/refinement/real_space/tst_fit_residues_selection.py usr/lib/python3.14/dist-packages/mmtbx/refinement/real_space/tst_fit_water.py usr/lib/python3.14/dist-packages/mmtbx/refinement/real_space/tst_individual_sites_1.py usr/lib/python3.14/dist-packages/mmtbx/refinement/real_space/tst_individual_sites_2.py usr/lib/python3.14/dist-packages/mmtbx/refinement/real_space/tst_individual_sites_3.py usr/lib/python3.14/dist-packages/mmtbx/refinement/real_space/tst_monitor.py usr/lib/python3.14/dist-packages/mmtbx/refinement/real_space/tst_rigid_body.py usr/lib/python3.14/dist-packages/mmtbx/refinement/real_space/tst_weight.py usr/lib/python3.14/dist-packages/mmtbx/refinement/real_space/utils.py usr/lib/python3.14/dist-packages/mmtbx/refinement/real_space/weight.py usr/lib/python3.14/dist-packages/mmtbx/regression/ usr/lib/python3.14/dist-packages/mmtbx/regression/__init__.py usr/lib/python3.14/dist-packages/mmtbx/regression/make_fake_anomalous_data.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_add_arrows_on_plot.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_add_h_to_water.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_adp_restraints.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_alignment.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_altloc_chain_break.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_altloc_remediate.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_angle.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_anomalous_substructure.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_apply_cif_restraints.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_arginine_geometry.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_cc_star.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_chain_comparison.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_chain_comparison_cif.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_cif_as_mtz_wavelengths.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_cis_trans_peptide_link.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_clashes.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_command_line_input.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_domains_from_pae.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_domains_from_pae_cif.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_dynamics_cli.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_examples.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_find_ncs.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_find_ss_structure.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_find_ss_structure_cif.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_flipping_his.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_fmodel.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_fmodel_2.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_fmodel_and_dm.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_fmodel_fd.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_fmodel_misc.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_fmodel_no_cryst1.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_geo_min_restraints_phil.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_geometry_minimization.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_helix_sheet_recs_as_pdb_files.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_holton_geometry_validation.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_isomorphous_difference_misc.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_ligand_ncs.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_loop_closure.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_lrv.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_map_model_cc.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_map_type_parser.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_maps_misc.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_metal_link_1.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_minimize_chain.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_ml_estimate.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_mmtbx_refinement_wrappers.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_mmtbx_refinement_wrappers_1.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_mmtbx_refinement_wrappers_2.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_model_map.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_model_vs_map.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_model_vs_sequence.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_models_to_from_chains.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_msa.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_mtz2map.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_multi_residue_class.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_origin_ids.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_pdbtools.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_polder.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_polder_1.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_polder_2.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_polder_3.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_polder_4.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_polder_box.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_polder_ccs.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_probe.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_process_predicted_model.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_process_predicted_model_cif.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_prune_model.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_psi_phi_extraction.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_rank_scale_map.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_rdkit_utils_fragmentation.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_real_space_correlation.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_reduce.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_reduce_cryoem_resolution.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_reduce_timeout.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_refine_anomalous_substructure.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_regularize_from_pdb.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_regularize_from_pdb_cif.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_ribbons.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_rigid_bond_test.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_ringer.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_sampled_model_density.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_scattering_table.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_scattering_type_registry.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_schrodinger_interface.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_sequence_validation.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_sort_hetatms.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_special_term_at_end.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_statistics_output.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_superpose.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_table_one.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_utils.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_validate_ligands.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_validate_ligands_2.py usr/lib/python3.14/dist-packages/mmtbx/regression/tst_validation_summary.py usr/lib/python3.14/dist-packages/mmtbx/regression/model/ usr/lib/python3.14/dist-packages/mmtbx/regression/model/__init__.py usr/lib/python3.14/dist-packages/mmtbx/regression/model/tst_model.py usr/lib/python3.14/dist-packages/mmtbx/regression/model/tst_model_2.py usr/lib/python3.14/dist-packages/mmtbx/regression/model/tst_model_biomt_mtrix.py usr/lib/python3.14/dist-packages/mmtbx/regression/model/tst_model_biomt_mtrix_2.py usr/lib/python3.14/dist-packages/mmtbx/regression/model/tst_model_cart_ref_restraints.py usr/lib/python3.14/dist-packages/mmtbx/regression/model/tst_model_dedeuterate.py usr/lib/python3.14/dist-packages/mmtbx/regression/model/tst_model_get_vdw_radii.py usr/lib/python3.14/dist-packages/mmtbx/regression/model/tst_model_merge.py usr/lib/python3.14/dist-packages/mmtbx/regression/model/tst_model_mtrix.py usr/lib/python3.14/dist-packages/mmtbx/regression/model/tst_model_ncs.py usr/lib/python3.14/dist-packages/mmtbx/regression/model/tst_model_neutralize_scatterers.py usr/lib/python3.14/dist-packages/mmtbx/regression/model/tst_model_pairs_within.py usr/lib/python3.14/dist-packages/mmtbx/regression/model/tst_model_ramachandran.py usr/lib/python3.14/dist-packages/mmtbx/regression/model/tst_model_remove_alternative_conformations.py usr/lib/python3.14/dist-packages/mmtbx/regression/model/tst_model_set_hydrogen_bond_length.py usr/lib/python3.14/dist-packages/mmtbx/regression/model/tst_model_symmetry.py usr/lib/python3.14/dist-packages/mmtbx/regression/model/tst_model_tors_ref_restraints.py usr/lib/python3.14/dist-packages/mmtbx/regression/model/tst_model_utils_merge_models.py usr/lib/python3.14/dist-packages/mmtbx/regression/model/tst_restrain_selection_to_self_or_neighbors.py usr/lib/python3.14/dist-packages/mmtbx/regression/ncs/ usr/lib/python3.14/dist-packages/mmtbx/regression/ncs/__init__.py usr/lib/python3.14/dist-packages/mmtbx/regression/ncs/tst_geometry_minimization_ncs_constraints.py usr/lib/python3.14/dist-packages/mmtbx/regression/ncs/tst_minimization_ncs_constraints.py usr/lib/python3.14/dist-packages/mmtbx/regression/ncs/tst_minimization_ncs_constraints2.py usr/lib/python3.14/dist-packages/mmtbx/regression/ncs/tst_minimization_ncs_constraints3.py usr/lib/python3.14/dist-packages/mmtbx/regression/ncs/tst_minimization_ncs_constraints_real_space.py usr/lib/python3.14/dist-packages/mmtbx/regression/ncs/tst_ncs_restraints_group_list.py usr/lib/python3.14/dist-packages/mmtbx/regression/ncs/tst_ncs_search.py usr/lib/python3.14/dist-packages/mmtbx/regression/ncs/tst_ncs_search_flips.py usr/lib/python3.14/dist-packages/mmtbx/regression/ncs/tst_ncs_utils.py usr/lib/python3.14/dist-packages/mmtbx/regression/ncs/tst_restraints.py usr/lib/python3.14/dist-packages/mmtbx/regression/tls/ usr/lib/python3.14/dist-packages/mmtbx/regression/tls/__init__.py usr/lib/python3.14/dist-packages/mmtbx/regression/tls/tst_formula_t_S_10_vs_11_2igd.py usr/lib/python3.14/dist-packages/mmtbx/regression/tls/tst_formula_t_S_10_vs_11_4muy.py usr/lib/python3.14/dist-packages/mmtbx/regression/tls/tst_get_t_scheme.py usr/lib/python3.14/dist-packages/mmtbx/regression/tls/tst_tls.py usr/lib/python3.14/dist-packages/mmtbx/regression/tls/tst_tls_analysis.py usr/lib/python3.14/dist-packages/mmtbx/regression/tls/tst_tls_as_xyz.py usr/lib/python3.14/dist-packages/mmtbx/regression/tls/tst_tls_optimise_amplitudes.py usr/lib/python3.14/dist-packages/mmtbx/regression/tls/tst_tls_refinement_fft.py usr/lib/python3.14/dist-packages/mmtbx/regression/tls/tst_tls_utils.py usr/lib/python3.14/dist-packages/mmtbx/regression/tls/tst_u_tls_vs_u_ens_00.py usr/lib/python3.14/dist-packages/mmtbx/regression/tls/tst_u_tls_vs_u_ens_01.py usr/lib/python3.14/dist-packages/mmtbx/regression/tls/tst_u_tls_vs_u_ens_02.py usr/lib/python3.14/dist-packages/mmtbx/regression/tls/tst_u_tls_vs_u_ens_03.py usr/lib/python3.14/dist-packages/mmtbx/regression/tls/tst_u_tls_vs_u_ens_04.py usr/lib/python3.14/dist-packages/mmtbx/ringer/ usr/lib/python3.14/dist-packages/mmtbx/ringer/__init__.py usr/lib/python3.14/dist-packages/mmtbx/ringer/em_rolling.py usr/lib/python3.14/dist-packages/mmtbx/ringer/em_rscc.py usr/lib/python3.14/dist-packages/mmtbx/ringer/em_scoring.py usr/lib/python3.14/dist-packages/mmtbx/ringer/emringer.py usr/lib/python3.14/dist-packages/mmtbx/ringer/tst_em_rscc.py usr/lib/python3.14/dist-packages/mmtbx/ringer/tst_emringer.py usr/lib/python3.14/dist-packages/mmtbx/rotamer/ usr/lib/python3.14/dist-packages/mmtbx/rotamer/__init__.py usr/lib/python3.14/dist-packages/mmtbx/rotamer/graphics.py usr/lib/python3.14/dist-packages/mmtbx/rotamer/n_dim_table.py usr/lib/python3.14/dist-packages/mmtbx/rotamer/nqh.py usr/lib/python3.14/dist-packages/mmtbx/rotamer/ramachandran_eval.py usr/lib/python3.14/dist-packages/mmtbx/rotamer/ramachandran_eval_deprecated.py usr/lib/python3.14/dist-packages/mmtbx/rotamer/rotamer_eval.py usr/lib/python3.14/dist-packages/mmtbx/rotamer/sidechain_angles.py usr/lib/python3.14/dist-packages/mmtbx/rotamer/tst_geostd_vs_sidechain_angles_props.py usr/lib/python3.14/dist-packages/mmtbx/rotamer/tst_rotamer_eval.py usr/lib/python3.14/dist-packages/mmtbx/rsr/ usr/lib/python3.14/dist-packages/mmtbx/rsr/__init__.py usr/lib/python3.14/dist-packages/mmtbx/rsr/tst.py usr/lib/python3.14/dist-packages/mmtbx/scaling/ usr/lib/python3.14/dist-packages/mmtbx/scaling/__init__.py usr/lib/python3.14/dist-packages/mmtbx/scaling/absence_likelihood.py usr/lib/python3.14/dist-packages/mmtbx/scaling/absences.py usr/lib/python3.14/dist-packages/mmtbx/scaling/absolute_scaling.py usr/lib/python3.14/dist-packages/mmtbx/scaling/basic_analyses.py usr/lib/python3.14/dist-packages/mmtbx/scaling/bayesian_estimator.py usr/lib/python3.14/dist-packages/mmtbx/scaling/data_statistics.py usr/lib/python3.14/dist-packages/mmtbx/scaling/fa_estimation.py usr/lib/python3.14/dist-packages/mmtbx/scaling/make_param.py usr/lib/python3.14/dist-packages/mmtbx/scaling/massage_twin_detwin_data.py usr/lib/python3.14/dist-packages/mmtbx/scaling/matthews.py usr/lib/python3.14/dist-packages/mmtbx/scaling/mean_f_rms_f.py usr/lib/python3.14/dist-packages/mmtbx/scaling/outlier_plots.py usr/lib/python3.14/dist-packages/mmtbx/scaling/outlier_rejection.py usr/lib/python3.14/dist-packages/mmtbx/scaling/pair_analyses.py usr/lib/python3.14/dist-packages/mmtbx/scaling/plan_sad_experiment.py usr/lib/python3.14/dist-packages/mmtbx/scaling/pre_scale.py usr/lib/python3.14/dist-packages/mmtbx/scaling/random_omit.py usr/lib/python3.14/dist-packages/mmtbx/scaling/relative_scaling.py usr/lib/python3.14/dist-packages/mmtbx/scaling/relative_wilson.py usr/lib/python3.14/dist-packages/mmtbx/scaling/remove_outliers.py usr/lib/python3.14/dist-packages/mmtbx/scaling/sigmaa_estimation.py usr/lib/python3.14/dist-packages/mmtbx/scaling/ta_alpha_beta_calc.py usr/lib/python3.14/dist-packages/mmtbx/scaling/thorough_outlier_test.py usr/lib/python3.14/dist-packages/mmtbx/scaling/tst_absences.py usr/lib/python3.14/dist-packages/mmtbx/scaling/tst_bayesian_estimator.py usr/lib/python3.14/dist-packages/mmtbx/scaling/tst_massage_data.py usr/lib/python3.14/dist-packages/mmtbx/scaling/tst_mean_f_rms_f.py usr/lib/python3.14/dist-packages/mmtbx/scaling/tst_outlier.py usr/lib/python3.14/dist-packages/mmtbx/scaling/tst_plan_sad_experiment.py usr/lib/python3.14/dist-packages/mmtbx/scaling/tst_scaling.py usr/lib/python3.14/dist-packages/mmtbx/scaling/tst_sigmaa.py usr/lib/python3.14/dist-packages/mmtbx/scaling/tst_xtriage.py usr/lib/python3.14/dist-packages/mmtbx/scaling/tst_xtriage_twin_analyses.py usr/lib/python3.14/dist-packages/mmtbx/scaling/twin_analyses.py usr/lib/python3.14/dist-packages/mmtbx/scaling/twmad_scale.py usr/lib/python3.14/dist-packages/mmtbx/scaling/xtriage.py usr/lib/python3.14/dist-packages/mmtbx/secondary_structure/ usr/lib/python3.14/dist-packages/mmtbx/secondary_structure/__init__.py usr/lib/python3.14/dist-packages/mmtbx/secondary_structure/find_ss_from_ca.py usr/lib/python3.14/dist-packages/mmtbx/secondary_structure/nucleic_acids.py usr/lib/python3.14/dist-packages/mmtbx/secondary_structure/proteins.py usr/lib/python3.14/dist-packages/mmtbx/secondary_structure/regularize_from_pdb.py usr/lib/python3.14/dist-packages/mmtbx/secondary_structure/secondary_structure_params.py usr/lib/python3.14/dist-packages/mmtbx/secondary_structure/ss_validation.py usr/lib/python3.14/dist-packages/mmtbx/secondary_structure/tst.py usr/lib/python3.14/dist-packages/mmtbx/secondary_structure/tst_insertion_codes.py usr/lib/python3.14/dist-packages/mmtbx/secondary_structure/tst_segid.py usr/lib/python3.14/dist-packages/mmtbx/secondary_structure/utils.py usr/lib/python3.14/dist-packages/mmtbx/secondary_structure/build/ usr/lib/python3.14/dist-packages/mmtbx/secondary_structure/build/__init__.py usr/lib/python3.14/dist-packages/mmtbx/secondary_structure/build/ss_idealization.py usr/lib/python3.14/dist-packages/mmtbx/secondary_structure/build/tst_1.py usr/lib/python3.14/dist-packages/mmtbx/secondary_structure/build/tst_2.py usr/lib/python3.14/dist-packages/mmtbx/secondary_structure/build/tst_3.py usr/lib/python3.14/dist-packages/mmtbx/secondary_structure/build/tst_io.py usr/lib/python3.14/dist-packages/mmtbx/secondary_structure/build/tst_ss_id_ncs.py usr/lib/python3.14/dist-packages/mmtbx/sisa/ usr/lib/python3.14/dist-packages/mmtbx/sisa/__init__.py usr/lib/python3.14/dist-packages/mmtbx/sisa/optimize/ usr/lib/python3.14/dist-packages/mmtbx/sisa/optimize/__init__.py usr/lib/python3.14/dist-packages/mmtbx/sisa/optimize/mod_ga.py usr/lib/python3.14/dist-packages/mmtbx/sisa/optimize/mod_input.py usr/lib/python3.14/dist-packages/mmtbx/sisa/optimize/mod_masks.py usr/lib/python3.14/dist-packages/mmtbx/sisa/optimize/mod_mtz.py usr/lib/python3.14/dist-packages/mmtbx/sisa/optimize/mod_optimize.py usr/lib/python3.14/dist-packages/mmtbx/sisa/optimize/mod_util.py usr/lib/python3.14/dist-packages/mmtbx/solvent/ usr/lib/python3.14/dist-packages/mmtbx/solvent/__init__.py usr/lib/python3.14/dist-packages/mmtbx/solvent/ensemble_ordered_solvent.py usr/lib/python3.14/dist-packages/mmtbx/solvent/map_to_water.py usr/lib/python3.14/dist-packages/mmtbx/solvent/ordered_solvent.py usr/lib/python3.14/dist-packages/mmtbx/suitename/ usr/lib/python3.14/dist-packages/mmtbx/suitename/__init__.py usr/lib/python3.14/dist-packages/mmtbx/suitename/diangle.py usr/lib/python3.14/dist-packages/mmtbx/suitename/dualparse.py usr/lib/python3.14/dist-packages/mmtbx/suitename/mainchain.py usr/lib/python3.14/dist-packages/mmtbx/suitename/suitealyze.py usr/lib/python3.14/dist-packages/mmtbx/suitename/suitename.py usr/lib/python3.14/dist-packages/mmtbx/suitename/suitenamedefs.py usr/lib/python3.14/dist-packages/mmtbx/suitename/suiteninit.py usr/lib/python3.14/dist-packages/mmtbx/suitename/suiteninput.py usr/lib/python3.14/dist-packages/mmtbx/suitename/suitenout.py usr/lib/python3.14/dist-packages/mmtbx/suitename/suites.py usr/lib/python3.14/dist-packages/mmtbx/suitename/transdent.py usr/lib/python3.14/dist-packages/mmtbx/tls/ usr/lib/python3.14/dist-packages/mmtbx/tls/__init__.py usr/lib/python3.14/dist-packages/mmtbx/tls/analysis.py usr/lib/python3.14/dist-packages/mmtbx/tls/command_line.py usr/lib/python3.14/dist-packages/mmtbx/tls/decompose.py usr/lib/python3.14/dist-packages/mmtbx/tls/ladp.py usr/lib/python3.14/dist-packages/mmtbx/tls/optimise_amplitudes.py usr/lib/python3.14/dist-packages/mmtbx/tls/perm10.py usr/lib/python3.14/dist-packages/mmtbx/tls/perm11.py usr/lib/python3.14/dist-packages/mmtbx/tls/perm12.py usr/lib/python3.14/dist-packages/mmtbx/tls/perm13.py usr/lib/python3.14/dist-packages/mmtbx/tls/perm14.py usr/lib/python3.14/dist-packages/mmtbx/tls/perm15.py usr/lib/python3.14/dist-packages/mmtbx/tls/tls_as_xyz.py usr/lib/python3.14/dist-packages/mmtbx/tls/tools.py usr/lib/python3.14/dist-packages/mmtbx/tls/utils.py usr/lib/python3.14/dist-packages/mmtbx/twinning/ usr/lib/python3.14/dist-packages/mmtbx/twinning/__init__.py usr/lib/python3.14/dist-packages/mmtbx/twinning/probabalistic_detwinning.py usr/lib/python3.14/dist-packages/mmtbx/twinning/twin_f_model.py usr/lib/python3.14/dist-packages/mmtbx/utils/ usr/lib/python3.14/dist-packages/mmtbx/utils/__init__.py usr/lib/python3.14/dist-packages/mmtbx/utils/fab_elbow_angle.py usr/lib/python3.14/dist-packages/mmtbx/utils/grid2d.py usr/lib/python3.14/dist-packages/mmtbx/utils/ntc.py usr/lib/python3.14/dist-packages/mmtbx/utils/rotatable_bonds.py usr/lib/python3.14/dist-packages/mmtbx/utils/tst_switch_rotamers.py usr/lib/python3.14/dist-packages/mmtbx/validation/ usr/lib/python3.14/dist-packages/mmtbx/validation/__init__.py usr/lib/python3.14/dist-packages/mmtbx/validation/analyze_peptides.py usr/lib/python3.14/dist-packages/mmtbx/validation/barbed_wire_analysis.py usr/lib/python3.14/dist-packages/mmtbx/validation/cablam.py usr/lib/python3.14/dist-packages/mmtbx/validation/cbd_utils.py usr/lib/python3.14/dist-packages/mmtbx/validation/cbetadev.py usr/lib/python3.14/dist-packages/mmtbx/validation/chain_comparison.py usr/lib/python3.14/dist-packages/mmtbx/validation/clashscore.py usr/lib/python3.14/dist-packages/mmtbx/validation/clashscore2.py usr/lib/python3.14/dist-packages/mmtbx/validation/comparama.py usr/lib/python3.14/dist-packages/mmtbx/validation/comprehensive_residue.py usr/lib/python3.14/dist-packages/mmtbx/validation/convert_lists.py usr/lib/python3.14/dist-packages/mmtbx/validation/datasets.py usr/lib/python3.14/dist-packages/mmtbx/validation/ensembles.py usr/lib/python3.14/dist-packages/mmtbx/validation/experimental.py usr/lib/python3.14/dist-packages/mmtbx/validation/fav_lists.py usr/lib/python3.14/dist-packages/mmtbx/validation/graphics.py usr/lib/python3.14/dist-packages/mmtbx/validation/holton_geometry_validation.py usr/lib/python3.14/dist-packages/mmtbx/validation/ligands.py usr/lib/python3.14/dist-packages/mmtbx/validation/mean_devs_PRO_phi_psi.py usr/lib/python3.14/dist-packages/mmtbx/validation/mean_devs_VAL_THR_ILE_phi_psi.py usr/lib/python3.14/dist-packages/mmtbx/validation/mean_devs_others_phi_psi.py usr/lib/python3.14/dist-packages/mmtbx/validation/model_properties.py usr/lib/python3.14/dist-packages/mmtbx/validation/mp_validate_bonds.py usr/lib/python3.14/dist-packages/mmtbx/validation/omegalyze.py usr/lib/python3.14/dist-packages/mmtbx/validation/phi_psi_2_data.py usr/lib/python3.14/dist-packages/mmtbx/validation/rama_z.py usr/lib/python3.14/dist-packages/mmtbx/validation/ramalyze.py usr/lib/python3.14/dist-packages/mmtbx/validation/restraints.py usr/lib/python3.14/dist-packages/mmtbx/validation/rna_validate.py usr/lib/python3.14/dist-packages/mmtbx/validation/rotalyze.py usr/lib/python3.14/dist-packages/mmtbx/validation/sequence.py usr/lib/python3.14/dist-packages/mmtbx/validation/undowser.py usr/lib/python3.14/dist-packages/mmtbx/validation/undowser2.py usr/lib/python3.14/dist-packages/mmtbx/validation/utils.py usr/lib/python3.14/dist-packages/mmtbx/validation/validate_ligands.py usr/lib/python3.14/dist-packages/mmtbx/validation/waters.py usr/lib/python3.14/dist-packages/mmtbx/validation/molprobity/ usr/lib/python3.14/dist-packages/mmtbx/validation/molprobity/__init__.py usr/lib/python3.14/dist-packages/mmtbx/validation/molprobity/kinemage_templates.py usr/lib/python3.14/dist-packages/mmtbx/validation/molprobity/mp_geo.py usr/lib/python3.14/dist-packages/mmtbx/validation/molprobity/percentile_clashscore.py usr/lib/python3.14/dist-packages/mmtbx/validation/molprobity/percentile_mpscore.py usr/lib/python3.14/dist-packages/mmtbx/validation/molprobity/probescore_ligand.py usr/lib/python3.14/dist-packages/mmtbx/validation/molprobity/table_from_json.py usr/lib/python3.14/dist-packages/mmtbx/validation/ramachandran/ usr/lib/python3.14/dist-packages/mmtbx/validation/ramachandran/__init__.py usr/lib/python3.14/dist-packages/mmtbx/validation/ramachandran/convert_from_text.py usr/lib/python3.14/dist-packages/mmtbx/validation/regression/ usr/lib/python3.14/dist-packages/mmtbx/validation/regression/__init__.py usr/lib/python3.14/dist-packages/mmtbx/validation/regression/run_restraints.py usr/lib/python3.14/dist-packages/mmtbx/validation/regression/tst_cablam.py usr/lib/python3.14/dist-packages/mmtbx/validation/regression/tst_cablam_2.py usr/lib/python3.14/dist-packages/mmtbx/validation/regression/tst_cbetadev.py usr/lib/python3.14/dist-packages/mmtbx/validation/regression/tst_cbetadev_02.py usr/lib/python3.14/dist-packages/mmtbx/validation/regression/tst_chiral_validation.py usr/lib/python3.14/dist-packages/mmtbx/validation/regression/tst_clashscore.py usr/lib/python3.14/dist-packages/mmtbx/validation/regression/tst_clashscore_2.py usr/lib/python3.14/dist-packages/mmtbx/validation/regression/tst_do_flips_clashscore.py usr/lib/python3.14/dist-packages/mmtbx/validation/regression/tst_experimental.py usr/lib/python3.14/dist-packages/mmtbx/validation/regression/tst_find_region_max_value.py usr/lib/python3.14/dist-packages/mmtbx/validation/regression/tst_hydrogen_addition_clashscore.py usr/lib/python3.14/dist-packages/mmtbx/validation/regression/tst_keep_hydrogens.py usr/lib/python3.14/dist-packages/mmtbx/validation/regression/tst_model_properties.py usr/lib/python3.14/dist-packages/mmtbx/validation/regression/tst_molprobity_1.py usr/lib/python3.14/dist-packages/mmtbx/validation/regression/tst_molprobity_2.py usr/lib/python3.14/dist-packages/mmtbx/validation/regression/tst_molprobity_3.py usr/lib/python3.14/dist-packages/mmtbx/validation/regression/tst_molprobity_4.py usr/lib/python3.14/dist-packages/mmtbx/validation/regression/tst_molprobity_5.py usr/lib/python3.14/dist-packages/mmtbx/validation/regression/tst_molprobity_arguments.py usr/lib/python3.14/dist-packages/mmtbx/validation/regression/tst_mp_geo.py usr/lib/python3.14/dist-packages/mmtbx/validation/regression/tst_mp_geo_chiral_volume_cases.py usr/lib/python3.14/dist-packages/mmtbx/validation/regression/tst_mp_geo_endtoend.py usr/lib/python3.14/dist-packages/mmtbx/validation/regression/tst_mp_validate_bonds.py usr/lib/python3.14/dist-packages/mmtbx/validation/regression/tst_omegalyze.py usr/lib/python3.14/dist-packages/mmtbx/validation/regression/tst_rama_z_01.py usr/lib/python3.14/dist-packages/mmtbx/validation/regression/tst_rama_z_02.py usr/lib/python3.14/dist-packages/mmtbx/validation/regression/tst_ramalyze.py usr/lib/python3.14/dist-packages/mmtbx/validation/regression/tst_ramalyze2.py usr/lib/python3.14/dist-packages/mmtbx/validation/regression/tst_ramalyze_rare.py usr/lib/python3.14/dist-packages/mmtbx/validation/regression/tst_restraints.py usr/lib/python3.14/dist-packages/mmtbx/validation/regression/tst_rna_validate.py usr/lib/python3.14/dist-packages/mmtbx/validation/regression/tst_rotalyze.py usr/lib/python3.14/dist-packages/mmtbx/validation/regression/tst_suitename.py usr/lib/python3.14/dist-packages/mmtbx/validation/regression/tst_symmetry_SS.py usr/lib/python3.14/dist-packages/mmtbx/validation/regression/tst_undowser.py usr/lib/python3.14/dist-packages/mmtbx/validation/regression/tst_undowser2.py usr/lib/python3.14/dist-packages/mmtbx/validation/regression/tst_waters.py usr/lib/python3.14/dist-packages/mmtbx/wwpdb/ usr/lib/python3.14/dist-packages/mmtbx/wwpdb/__init__.py usr/lib/python3.14/dist-packages/mmtbx/wwpdb/rcsb_entry_request.py usr/lib/python3.14/dist-packages/mmtbx/wwpdb/rcsb_web_services.py usr/lib/python3.14/dist-packages/mmtbx/wwpdb/tst_rcsb_entry_request.py usr/lib/python3.14/dist-packages/mmtbx/wwpdb/tst_rcsb_web_services.py usr/lib/python3.14/dist-packages/omptbx/ usr/lib/python3.14/dist-packages/omptbx/__init__.py usr/lib/python3.14/dist-packages/omptbx/tst.py usr/lib/python3.14/dist-packages/qttbx/ usr/lib/python3.14/dist-packages/qttbx/__init__.py usr/lib/python3.14/dist-packages/qttbx/phil.py usr/lib/python3.14/dist-packages/qttbx/viewers/ usr/lib/python3.14/dist-packages/qttbx/viewers/__init__.py usr/lib/python3.14/dist-packages/qttbx/viewers/chimerax.py usr/lib/python3.14/dist-packages/rstbx/ usr/lib/python3.14/dist-packages/rstbx/__init__.py usr/lib/python3.14/dist-packages/rstbx/run_tests.py usr/lib/python3.14/dist-packages/rstbx/utils.py usr/lib/python3.14/dist-packages/rstbx/apps/ usr/lib/python3.14/dist-packages/rstbx/apps/__init__.py usr/lib/python3.14/dist-packages/rstbx/apps/dual_resolution_helpers.py usr/lib/python3.14/dist-packages/rstbx/apps/slip_helpers.py usr/lib/python3.14/dist-packages/rstbx/apps/spot_markup.py usr/lib/python3.14/dist-packages/rstbx/apps/stills/ usr/lib/python3.14/dist-packages/rstbx/apps/stills/__init__.py usr/lib/python3.14/dist-packages/rstbx/apps/stills/deltapsi_refinement_preceding_integration.py usr/lib/python3.14/dist-packages/rstbx/apps/stills/dials_refinement_preceding_integration.py usr/lib/python3.14/dist-packages/rstbx/apps/stills/simple_integration.py usr/lib/python3.14/dist-packages/rstbx/apps/stills/stills_integration.py usr/lib/python3.14/dist-packages/rstbx/apps/stills/util.py usr/lib/python3.14/dist-packages/rstbx/array_family/ usr/lib/python3.14/dist-packages/rstbx/array_family/__init__.py usr/lib/python3.14/dist-packages/rstbx/array_family/flex.py usr/lib/python3.14/dist-packages/rstbx/bandpass/ usr/lib/python3.14/dist-packages/rstbx/bandpass/__init__.py usr/lib/python3.14/dist-packages/rstbx/bandpass/simulated_annealing.py usr/lib/python3.14/dist-packages/rstbx/bpcx/ usr/lib/python3.14/dist-packages/rstbx/bpcx/__init__.py usr/lib/python3.14/dist-packages/rstbx/bpcx/compare_mosflm_xds.py usr/lib/python3.14/dist-packages/rstbx/bpcx/ersatz_misset.py usr/lib/python3.14/dist-packages/rstbx/bpcx/uc1_2.py usr/lib/python3.14/dist-packages/rstbx/bpcx/uc1_2_positions.py usr/lib/python3.14/dist-packages/rstbx/bpcx/uc1_2_positions_idx.py usr/lib/python3.14/dist-packages/rstbx/bpcx/uc1_2_validate.py usr/lib/python3.14/dist-packages/rstbx/bpcx/uc1_2a.py usr/lib/python3.14/dist-packages/rstbx/bpcx/detector_model/ usr/lib/python3.14/dist-packages/rstbx/bpcx/detector_model/__init__.py usr/lib/python3.14/dist-packages/rstbx/bpcx/detector_model/detector.py usr/lib/python3.14/dist-packages/rstbx/bpcx/detector_model/instrument_specifics.py usr/lib/python3.14/dist-packages/rstbx/bpcx/detector_model/tst_detector_model.py usr/lib/python3.14/dist-packages/rstbx/cftbx/ usr/lib/python3.14/dist-packages/rstbx/cftbx/__init__.py usr/lib/python3.14/dist-packages/rstbx/cftbx/coordinate_frame_converter.py usr/lib/python3.14/dist-packages/rstbx/cftbx/coordinate_frame_helpers.py usr/lib/python3.14/dist-packages/rstbx/cftbx/tst_coordinate_frame_converter.py usr/lib/python3.14/dist-packages/rstbx/command_line/ usr/lib/python3.14/dist-packages/rstbx/command_line/__init__.py usr/lib/python3.14/dist-packages/rstbx/command_line/example_viewer.py usr/lib/python3.14/dist-packages/rstbx/command_line/index.py usr/lib/python3.14/dist-packages/rstbx/command_line/simage.create.py usr/lib/python3.14/dist-packages/rstbx/command_line/simage.explore_completeness.py usr/lib/python3.14/dist-packages/rstbx/command_line/simage.solver.py usr/lib/python3.14/dist-packages/rstbx/command_line/simage.wx_display.py usr/lib/python3.14/dist-packages/rstbx/command_line/slip_viewer.py usr/lib/python3.14/dist-packages/rstbx/command_line/viewer.py usr/lib/python3.14/dist-packages/rstbx/detectors/ usr/lib/python3.14/dist-packages/rstbx/detectors/__init__.py usr/lib/python3.14/dist-packages/rstbx/detectors/silicon.py usr/lib/python3.14/dist-packages/rstbx/dials_core/ usr/lib/python3.14/dist-packages/rstbx/dials_core/__init__.py usr/lib/python3.14/dist-packages/rstbx/dials_core/integration_core.py usr/lib/python3.14/dist-packages/rstbx/diffraction/ usr/lib/python3.14/dist-packages/rstbx/diffraction/__init__.py usr/lib/python3.14/dist-packages/rstbx/diffraction/tst_ewald_sphere.py usr/lib/python3.14/dist-packages/rstbx/diffraction/tst_partial_derivatives.py usr/lib/python3.14/dist-packages/rstbx/diffraction/tst_predict.py usr/lib/python3.14/dist-packages/rstbx/diffraction/fastbragg/ usr/lib/python3.14/dist-packages/rstbx/diffraction/fastbragg/__init__.py usr/lib/python3.14/dist-packages/rstbx/diffraction/fastbragg/tst_bragg_minimal.py usr/lib/python3.14/dist-packages/rstbx/diffraction/fastbragg/tst_utils_clustering.py usr/lib/python3.14/dist-packages/rstbx/dps_core/ usr/lib/python3.14/dist-packages/rstbx/dps_core/__init__.py usr/lib/python3.14/dist-packages/rstbx/dps_core/basis_choice.py usr/lib/python3.14/dist-packages/rstbx/dps_core/cell_assessment.py usr/lib/python3.14/dist-packages/rstbx/dps_core/constrainment.py usr/lib/python3.14/dist-packages/rstbx/dps_core/lepage.py usr/lib/python3.14/dist-packages/rstbx/dps_core/sampling.py usr/lib/python3.14/dist-packages/rstbx/dps_core/tst_iotbx_converter.py usr/lib/python3.14/dist-packages/rstbx/dps_core/zuoreduction.py usr/lib/python3.14/dist-packages/rstbx/indexing/ usr/lib/python3.14/dist-packages/rstbx/indexing/__init__.py usr/lib/python3.14/dist-packages/rstbx/indexing/do_index.py usr/lib/python3.14/dist-packages/rstbx/indexing/tst_auto_monoscan.py usr/lib/python3.14/dist-packages/rstbx/indexing/tst_dataset1.py usr/lib/python3.14/dist-packages/rstbx/indexing_api/ usr/lib/python3.14/dist-packages/rstbx/indexing_api/__init__.py usr/lib/python3.14/dist-packages/rstbx/indexing_api/basis_choice.py usr/lib/python3.14/dist-packages/rstbx/indexing_api/force_cell.py usr/lib/python3.14/dist-packages/rstbx/indexing_api/lattice.py usr/lib/python3.14/dist-packages/rstbx/indexing_api/nearest_neighbor.py usr/lib/python3.14/dist-packages/rstbx/indexing_api/outlier_detection.py usr/lib/python3.14/dist-packages/rstbx/indexing_api/outlier_procedure.py usr/lib/python3.14/dist-packages/rstbx/indexing_api/sampling.py usr/lib/python3.14/dist-packages/rstbx/indexing_api/test_dps.py usr/lib/python3.14/dist-packages/rstbx/indexing_api/tools.py usr/lib/python3.14/dist-packages/rstbx/new_horizons/ usr/lib/python3.14/dist-packages/rstbx/new_horizons/__init__.py usr/lib/python3.14/dist-packages/rstbx/new_horizons/index.py usr/lib/python3.14/dist-packages/rstbx/new_horizons/oscillation_shots.py usr/lib/python3.14/dist-packages/rstbx/new_horizons/pixel_spread.py usr/lib/python3.14/dist-packages/rstbx/new_horizons/speckfinder.py usr/lib/python3.14/dist-packages/rstbx/new_horizons/spot_shape.py usr/lib/python3.14/dist-packages/rstbx/new_horizons/stats_index.py usr/lib/python3.14/dist-packages/rstbx/outlier_spots/ usr/lib/python3.14/dist-packages/rstbx/outlier_spots/__init__.py usr/lib/python3.14/dist-packages/rstbx/outlier_spots/fit_distribution.py usr/lib/python3.14/dist-packages/rstbx/phil/ usr/lib/python3.14/dist-packages/rstbx/phil/__init__.py usr/lib/python3.14/dist-packages/rstbx/phil/phil_preferences.py usr/lib/python3.14/dist-packages/rstbx/phil/preferences.py usr/lib/python3.14/dist-packages/rstbx/phil/scope.py usr/lib/python3.14/dist-packages/rstbx/simage/ usr/lib/python3.14/dist-packages/rstbx/simage/__init__.py usr/lib/python3.14/dist-packages/rstbx/simage/create.py usr/lib/python3.14/dist-packages/rstbx/simage/explore_completeness.py usr/lib/python3.14/dist-packages/rstbx/simage/integrate_crude.py usr/lib/python3.14/dist-packages/rstbx/simage/refine_uc_cr.py usr/lib/python3.14/dist-packages/rstbx/simage/run_labelit_index.py usr/lib/python3.14/dist-packages/rstbx/simage/run_spotfinder.py usr/lib/python3.14/dist-packages/rstbx/simage/solver.py usr/lib/python3.14/dist-packages/rstbx/simage/tst.py usr/lib/python3.14/dist-packages/rstbx/simage/wx_display.py usr/lib/python3.14/dist-packages/rstbx/simulation/ usr/lib/python3.14/dist-packages/rstbx/simulation/__init__.py usr/lib/python3.14/dist-packages/rstbx/simulation/constants.py usr/lib/python3.14/dist-packages/rstbx/simulation/sim_pdf.py usr/lib/python3.14/dist-packages/rstbx/simulation/sim_utils.py usr/lib/python3.14/dist-packages/rstbx/simulation/tst_xfel1_simple.py usr/lib/python3.14/dist-packages/rstbx/slip_viewer/ usr/lib/python3.14/dist-packages/rstbx/slip_viewer/__init__.py usr/lib/python3.14/dist-packages/rstbx/slip_viewer/calibration_frame.py usr/lib/python3.14/dist-packages/rstbx/slip_viewer/example_frame_plugin_hidden.py usr/lib/python3.14/dist-packages/rstbx/slip_viewer/frame.py usr/lib/python3.14/dist-packages/rstbx/slip_viewer/pyslip.py usr/lib/python3.14/dist-packages/rstbx/slip_viewer/ring_frame.py usr/lib/python3.14/dist-packages/rstbx/slip_viewer/score_frame.py usr/lib/python3.14/dist-packages/rstbx/slip_viewer/slip_display.py usr/lib/python3.14/dist-packages/rstbx/slip_viewer/slip_viewer_image_factory.py usr/lib/python3.14/dist-packages/rstbx/slip_viewer/tile_generation.py usr/lib/python3.14/dist-packages/rstbx/slip_viewer/uc_frame.py usr/lib/python3.14/dist-packages/rstbx/sublattice_support/ usr/lib/python3.14/dist-packages/rstbx/sublattice_support/__init__.py usr/lib/python3.14/dist-packages/rstbx/sublattice_support/change_basis.py usr/lib/python3.14/dist-packages/rstbx/sublattice_support/tst_sublattice.py usr/lib/python3.14/dist-packages/rstbx/symmetry/ usr/lib/python3.14/dist-packages/rstbx/symmetry/__init__.py usr/lib/python3.14/dist-packages/rstbx/symmetry/sgtbx_adaptor.py usr/lib/python3.14/dist-packages/rstbx/symmetry/subgroup.py usr/lib/python3.14/dist-packages/rstbx/symmetry/constraints/ usr/lib/python3.14/dist-packages/rstbx/symmetry/constraints/__init__.py usr/lib/python3.14/dist-packages/rstbx/symmetry/constraints/g_gradients.py usr/lib/python3.14/dist-packages/rstbx/symmetry/constraints/parameter_reduction.py usr/lib/python3.14/dist-packages/rstbx/viewer/ usr/lib/python3.14/dist-packages/rstbx/viewer/__init__.py usr/lib/python3.14/dist-packages/rstbx/viewer/calibration.py usr/lib/python3.14/dist-packages/rstbx/viewer/calibration_frame.py usr/lib/python3.14/dist-packages/rstbx/viewer/controls.py usr/lib/python3.14/dist-packages/rstbx/viewer/dataset.py usr/lib/python3.14/dist-packages/rstbx/viewer/display.py usr/lib/python3.14/dist-packages/rstbx/viewer/drivers.py usr/lib/python3.14/dist-packages/rstbx/viewer/frame.py usr/lib/python3.14/dist-packages/rstbx/viewer/indexing.py usr/lib/python3.14/dist-packages/rstbx/viewer/integration.py usr/lib/python3.14/dist-packages/rstbx/viewer/pixels3d.py usr/lib/python3.14/dist-packages/rstbx/viewer/processing.py usr/lib/python3.14/dist-packages/rstbx/viewer/results_base.py usr/lib/python3.14/dist-packages/rstbx/viewer/spotfinder_frame.py usr/lib/python3.14/dist-packages/rstbx/viewer/spotfinder_wrap.py usr/lib/python3.14/dist-packages/rstbx/viewer/tst.py usr/lib/python3.14/dist-packages/scitbx/ usr/lib/python3.14/dist-packages/scitbx/__init__.py usr/lib/python3.14/dist-packages/scitbx/cross_entropy.py usr/lib/python3.14/dist-packages/scitbx/cubicle_neighbors.py usr/lib/python3.14/dist-packages/scitbx/differential_evolution.py usr/lib/python3.14/dist-packages/scitbx/direct_search_simulated_annealing.py usr/lib/python3.14/dist-packages/scitbx/fftpack.py usr/lib/python3.14/dist-packages/scitbx/genetic_algorithm_with_mp.py usr/lib/python3.14/dist-packages/scitbx/golden_section_search.py usr/lib/python3.14/dist-packages/scitbx/lbfgsb.py usr/lib/python3.14/dist-packages/scitbx/libtbx_refresh.py usr/lib/python3.14/dist-packages/scitbx/minimizers.py usr/lib/python3.14/dist-packages/scitbx/minpack.py usr/lib/python3.14/dist-packages/scitbx/r3_utils.py usr/lib/python3.14/dist-packages/scitbx/regular_grid_on_unit_sphere.py usr/lib/python3.14/dist-packages/scitbx/restraints.py usr/lib/python3.14/dist-packages/scitbx/run_tests.py usr/lib/python3.14/dist-packages/scitbx/simplex.py usr/lib/python3.14/dist-packages/scitbx/smoothing.py usr/lib/python3.14/dist-packages/scitbx/array_family/ usr/lib/python3.14/dist-packages/scitbx/array_family/__init__.py usr/lib/python3.14/dist-packages/scitbx/array_family/flex.py usr/lib/python3.14/dist-packages/scitbx/array_family/shared.py usr/lib/python3.14/dist-packages/scitbx/array_family/accessors/ usr/lib/python3.14/dist-packages/scitbx/array_family/accessors/__init__.py usr/lib/python3.14/dist-packages/scitbx/array_family/boost_python/ usr/lib/python3.14/dist-packages/scitbx/array_family/boost_python/__init__.py usr/lib/python3.14/dist-packages/scitbx/array_family/boost_python/regression_test.py usr/lib/python3.14/dist-packages/scitbx/array_family/boost_python/tst_cost_of_m_handle_in_af_shared.py usr/lib/python3.14/dist-packages/scitbx/array_family/boost_python/tst_flex.py usr/lib/python3.14/dist-packages/scitbx/array_family/boost_python/tst_flex_argument_passing.py usr/lib/python3.14/dist-packages/scitbx/array_family/boost_python/tst_integer_offsets_vs_pointers.py usr/lib/python3.14/dist-packages/scitbx/array_family/boost_python/tst_numpy_bridge.py usr/lib/python3.14/dist-packages/scitbx/array_family/boost_python/tst_shared.py usr/lib/python3.14/dist-packages/scitbx/array_family/boost_python/tst_smart_selection.py usr/lib/python3.14/dist-packages/scitbx/array_family/detail/ usr/lib/python3.14/dist-packages/scitbx/array_family/detail/__init__.py usr/lib/python3.14/dist-packages/scitbx/boost_python/ usr/lib/python3.14/dist-packages/scitbx/boost_python/__init__.py usr/lib/python3.14/dist-packages/scitbx/command_line/ usr/lib/python3.14/dist-packages/scitbx/command_line/__init__.py usr/lib/python3.14/dist-packages/scitbx/command_line/apply_tapenade_hints.py usr/lib/python3.14/dist-packages/scitbx/command_line/generate_error_h.py usr/lib/python3.14/dist-packages/scitbx/command_line/histogram.py usr/lib/python3.14/dist-packages/scitbx/command_line/show_exp_times.py usr/lib/python3.14/dist-packages/scitbx/command_line/show_sizes.py usr/lib/python3.14/dist-packages/scitbx/command_line/unicode_examples.py usr/lib/python3.14/dist-packages/scitbx/dtmin/ usr/lib/python3.14/dist-packages/scitbx/dtmin/__init__.py usr/lib/python3.14/dist-packages/scitbx/dtmin/auxiliary.py usr/lib/python3.14/dist-packages/scitbx/dtmin/bounds.py usr/lib/python3.14/dist-packages/scitbx/dtmin/compulsory.py usr/lib/python3.14/dist-packages/scitbx/dtmin/min_logging.py usr/lib/python3.14/dist-packages/scitbx/dtmin/minimizer.py usr/lib/python3.14/dist-packages/scitbx/dtmin/optional.py usr/lib/python3.14/dist-packages/scitbx/dtmin/realsymmetricpseudoinverse.py usr/lib/python3.14/dist-packages/scitbx/dtmin/refinebase.py usr/lib/python3.14/dist-packages/scitbx/dtmin/reparams.py usr/lib/python3.14/dist-packages/scitbx/dtmin/twisted_gaussian.py usr/lib/python3.14/dist-packages/scitbx/dtmin/regression/ usr/lib/python3.14/dist-packages/scitbx/dtmin/regression/__init__.py usr/lib/python3.14/dist-packages/scitbx/dtmin/regression/tst_dtmin_basic.py usr/lib/python3.14/dist-packages/scitbx/dtmin/regression/tst_dtmin_booth.py usr/lib/python3.14/dist-packages/scitbx/dtmin/regression/tst_dtmin_twisted.py usr/lib/python3.14/dist-packages/scitbx/error/ usr/lib/python3.14/dist-packages/scitbx/error/__init__.py usr/lib/python3.14/dist-packages/scitbx/error/tst_error.py usr/lib/python3.14/dist-packages/scitbx/examples/ usr/lib/python3.14/dist-packages/scitbx/examples/__init__.py usr/lib/python3.14/dist-packages/scitbx/examples/bootstrap.py usr/lib/python3.14/dist-packages/scitbx/examples/chebyshev_lsq_example.py usr/lib/python3.14/dist-packages/scitbx/examples/flex_array_loops.py usr/lib/python3.14/dist-packages/scitbx/examples/flex_grid.py usr/lib/python3.14/dist-packages/scitbx/examples/functions.py usr/lib/python3.14/dist-packages/scitbx/examples/immoptibox_ports.py usr/lib/python3.14/dist-packages/scitbx/examples/integrating_a_weighted_sinc_function.py usr/lib/python3.14/dist-packages/scitbx/examples/lbfgs_linear_least_squares_fit.py usr/lib/python3.14/dist-packages/scitbx/examples/lbfgs_recipe.py usr/lib/python3.14/dist-packages/scitbx/examples/minimizer_comparisons.py usr/lib/python3.14/dist-packages/scitbx/examples/principal_axes_of_inertia.py usr/lib/python3.14/dist-packages/scitbx/examples/rigid_body_refinement_core.py usr/lib/python3.14/dist-packages/scitbx/examples/bevington/ usr/lib/python3.14/dist-packages/scitbx/examples/bevington/__init__.py usr/lib/python3.14/dist-packages/scitbx/examples/bevington/silver.py usr/lib/python3.14/dist-packages/scitbx/glmtbx/ usr/lib/python3.14/dist-packages/scitbx/glmtbx/__init__.py usr/lib/python3.14/dist-packages/scitbx/glmtbx/boost_python/ usr/lib/python3.14/dist-packages/scitbx/glmtbx/boost_python/__init__.py usr/lib/python3.14/dist-packages/scitbx/glmtbx/tests/ usr/lib/python3.14/dist-packages/scitbx/glmtbx/tests/__init__.py usr/lib/python3.14/dist-packages/scitbx/glmtbx/tests/tst.py usr/lib/python3.14/dist-packages/scitbx/graph/ usr/lib/python3.14/dist-packages/scitbx/graph/__init__.py usr/lib/python3.14/dist-packages/scitbx/graph/rigidity.py usr/lib/python3.14/dist-packages/scitbx/graph/rigidity_matrix_symbolic.py usr/lib/python3.14/dist-packages/scitbx/graph/tardy_tree.py usr/lib/python3.14/dist-packages/scitbx/graph/test_cases_tardy_pdb.py usr/lib/python3.14/dist-packages/scitbx/graph/tst_rigidity.py usr/lib/python3.14/dist-packages/scitbx/graph/tst_tardy_tree.py usr/lib/python3.14/dist-packages/scitbx/graph/tst_tardy_tree_find_paths.py usr/lib/python3.14/dist-packages/scitbx/graph/tst_utils.py usr/lib/python3.14/dist-packages/scitbx/graph/utils.py usr/lib/python3.14/dist-packages/scitbx/graphics_utils/ usr/lib/python3.14/dist-packages/scitbx/graphics_utils/__init__.py usr/lib/python3.14/dist-packages/scitbx/graphics_utils/tst.py usr/lib/python3.14/dist-packages/scitbx/iso_surface/ usr/lib/python3.14/dist-packages/scitbx/iso_surface/__init__.py usr/lib/python3.14/dist-packages/scitbx/iso_surface/tst_iso_surface.py usr/lib/python3.14/dist-packages/scitbx/lbfgs/ usr/lib/python3.14/dist-packages/scitbx/lbfgs/__init__.py usr/lib/python3.14/dist-packages/scitbx/lbfgs/tst_curvatures.py usr/lib/python3.14/dist-packages/scitbx/lbfgs/tst_ext.py usr/lib/python3.14/dist-packages/scitbx/lbfgs/tst_func_free_line_search.py usr/lib/python3.14/dist-packages/scitbx/lbfgs/tst_lbfgs_fem.py usr/lib/python3.14/dist-packages/scitbx/lbfgs/tst_mpi_split_evaluator.py usr/lib/python3.14/dist-packages/scitbx/lbfgs/dev/ usr/lib/python3.14/dist-packages/scitbx/lbfgs/dev/__init__.py usr/lib/python3.14/dist-packages/scitbx/lbfgs/dev/run.py usr/lib/python3.14/dist-packages/scitbx/lbfgs/dev/twisted_gaussian.py usr/lib/python3.14/dist-packages/scitbx/linalg/ usr/lib/python3.14/dist-packages/scitbx/linalg/__init__.py usr/lib/python3.14/dist-packages/scitbx/linalg/eigensystem.py usr/lib/python3.14/dist-packages/scitbx/linalg/ext.py usr/lib/python3.14/dist-packages/scitbx/linalg/householder.py usr/lib/python3.14/dist-packages/scitbx/linalg/svd.py usr/lib/python3.14/dist-packages/scitbx/linalg/boost_python/ usr/lib/python3.14/dist-packages/scitbx/linalg/boost_python/__init__.py usr/lib/python3.14/dist-packages/scitbx/linalg/tests/ usr/lib/python3.14/dist-packages/scitbx/linalg/tests/__init__.py usr/lib/python3.14/dist-packages/scitbx/linalg/tests/tst_cholesky.py usr/lib/python3.14/dist-packages/scitbx/linalg/tests/tst_eigensystem.py usr/lib/python3.14/dist-packages/scitbx/linalg/tests/tst_lapack_dsyev.py usr/lib/python3.14/dist-packages/scitbx/linalg/tests/tst_lapack_svd.py usr/lib/python3.14/dist-packages/scitbx/linalg/tests/tst_matrix.py usr/lib/python3.14/dist-packages/scitbx/linalg/tests/tst_svd.py usr/lib/python3.14/dist-packages/scitbx/line_search/ usr/lib/python3.14/dist-packages/scitbx/line_search/__init__.py usr/lib/python3.14/dist-packages/scitbx/lstbx/ usr/lib/python3.14/dist-packages/scitbx/lstbx/__init__.py usr/lib/python3.14/dist-packages/scitbx/lstbx/normal_eqns.py usr/lib/python3.14/dist-packages/scitbx/lstbx/normal_eqns_solving.py usr/lib/python3.14/dist-packages/scitbx/lstbx/benchmarks/ usr/lib/python3.14/dist-packages/scitbx/lstbx/benchmarks/__init__.py usr/lib/python3.14/dist-packages/scitbx/lstbx/boost_python/ usr/lib/python3.14/dist-packages/scitbx/lstbx/boost_python/__init__.py usr/lib/python3.14/dist-packages/scitbx/lstbx/tests/ usr/lib/python3.14/dist-packages/scitbx/lstbx/tests/__init__.py usr/lib/python3.14/dist-packages/scitbx/lstbx/tests/test_problems.py usr/lib/python3.14/dist-packages/scitbx/lstbx/tests/tst_normal_equations.py usr/lib/python3.14/dist-packages/scitbx/math/ usr/lib/python3.14/dist-packages/scitbx/math/__init__.py usr/lib/python3.14/dist-packages/scitbx/math/besselk.py usr/lib/python3.14/dist-packages/scitbx/math/breakpoint.py usr/lib/python3.14/dist-packages/scitbx/math/chebyshev_lsq_fit.py usr/lib/python3.14/dist-packages/scitbx/math/clustering.py usr/lib/python3.14/dist-packages/scitbx/math/cubic_spline.py usr/lib/python3.14/dist-packages/scitbx/math/curve_fitting.py usr/lib/python3.14/dist-packages/scitbx/math/des_3_100_13.py usr/lib/python3.14/dist-packages/scitbx/math/des_3_240_21.py usr/lib/python3.14/dist-packages/scitbx/math/distributions.py usr/lib/python3.14/dist-packages/scitbx/math/euler_angles.py usr/lib/python3.14/dist-packages/scitbx/math/ext.py usr/lib/python3.14/dist-packages/scitbx/math/farey.py usr/lib/python3.14/dist-packages/scitbx/math/fit_peak.py usr/lib/python3.14/dist-packages/scitbx/math/fit_quadratic_function.py usr/lib/python3.14/dist-packages/scitbx/math/fliege_mayer_400.py usr/lib/python3.14/dist-packages/scitbx/math/fliege_mayer_900.py usr/lib/python3.14/dist-packages/scitbx/math/fliege_mayer_900_ylm.py usr/lib/python3.14/dist-packages/scitbx/math/gaussian.py usr/lib/python3.14/dist-packages/scitbx/math/gaussian_fit.py usr/lib/python3.14/dist-packages/scitbx/math/gumbel.py usr/lib/python3.14/dist-packages/scitbx/math/incremental_SO3_sampling.py usr/lib/python3.14/dist-packages/scitbx/math/lefebvre.py usr/lib/python3.14/dist-packages/scitbx/math/minimum_covering_ellipsoid.py usr/lib/python3.14/dist-packages/scitbx/math/multiple_superposition.py usr/lib/python3.14/dist-packages/scitbx/math/periodogram.py usr/lib/python3.14/dist-packages/scitbx/math/scale_curves.py usr/lib/python3.14/dist-packages/scitbx/math/sieve_of_eratosthenes.py usr/lib/python3.14/dist-packages/scitbx/math/so3_lie_algebra.py usr/lib/python3.14/dist-packages/scitbx/math/spe.py usr/lib/python3.14/dist-packages/scitbx/math/sphere_sphere_intersection.py usr/lib/python3.14/dist-packages/scitbx/math/superpose.py usr/lib/python3.14/dist-packages/scitbx/math/tst_2d_zernike.py usr/lib/python3.14/dist-packages/scitbx/math/tst_bessel_zeros.py usr/lib/python3.14/dist-packages/scitbx/math/tst_multivariate_moments.py usr/lib/python3.14/dist-packages/scitbx/math/tst_so3_lie_algebra.py usr/lib/python3.14/dist-packages/scitbx/math/tst_undirected_graph.py usr/lib/python3.14/dist-packages/scitbx/math/tst_zernike.py usr/lib/python3.14/dist-packages/scitbx/math/tst_zernike_mom.py usr/lib/python3.14/dist-packages/scitbx/math/undirected_graph.py usr/lib/python3.14/dist-packages/scitbx/math/zernike_align_fft.py usr/lib/python3.14/dist-packages/scitbx/math/boost_python/ usr/lib/python3.14/dist-packages/scitbx/math/boost_python/__init__.py usr/lib/python3.14/dist-packages/scitbx/math/dev/ usr/lib/python3.14/dist-packages/scitbx/math/dev/__init__.py usr/lib/python3.14/dist-packages/scitbx/math/erf/ usr/lib/python3.14/dist-packages/scitbx/math/erf/__init__.py usr/lib/python3.14/dist-packages/scitbx/math/tests/ usr/lib/python3.14/dist-packages/scitbx/math/tests/__init__.py usr/lib/python3.14/dist-packages/scitbx/math/tests/tst_angle_derivative.py usr/lib/python3.14/dist-packages/scitbx/math/tests/tst_bessel.py usr/lib/python3.14/dist-packages/scitbx/math/tests/tst_clustering.py usr/lib/python3.14/dist-packages/scitbx/math/tests/tst_cubic_equation.py usr/lib/python3.14/dist-packages/scitbx/math/tests/tst_curve_fitting.py usr/lib/python3.14/dist-packages/scitbx/math/tests/tst_dmatrix.py usr/lib/python3.14/dist-packages/scitbx/math/tests/tst_error_propagation_matrix_inverse.py usr/lib/python3.14/dist-packages/scitbx/math/tests/tst_euler_angles.py usr/lib/python3.14/dist-packages/scitbx/math/tests/tst_exp_functions.py usr/lib/python3.14/dist-packages/scitbx/math/tests/tst_fit_peak.py usr/lib/python3.14/dist-packages/scitbx/math/tests/tst_fit_quadratic_function.py usr/lib/python3.14/dist-packages/scitbx/math/tests/tst_g_function.py usr/lib/python3.14/dist-packages/scitbx/math/tests/tst_gaussian.py usr/lib/python3.14/dist-packages/scitbx/math/tests/tst_gaussian_fit_1d_analytical.py usr/lib/python3.14/dist-packages/scitbx/math/tests/tst_gcd.py usr/lib/python3.14/dist-packages/scitbx/math/tests/tst_halton.py usr/lib/python3.14/dist-packages/scitbx/math/tests/tst_line_search.py usr/lib/python3.14/dist-packages/scitbx/math/tests/tst_math.py usr/lib/python3.14/dist-packages/scitbx/math/tests/tst_minimum_covering_ellipsoid.py usr/lib/python3.14/dist-packages/scitbx/math/tests/tst_orthonormal_basis.py usr/lib/python3.14/dist-packages/scitbx/math/tests/tst_periodogram.py usr/lib/python3.14/dist-packages/scitbx/math/tests/tst_quadrature.py usr/lib/python3.14/dist-packages/scitbx/math/tests/tst_r3_rotation.py usr/lib/python3.14/dist-packages/scitbx/math/tests/tst_resample.py usr/lib/python3.14/dist-packages/scitbx/math/tests/tst_similarity_indices.py usr/lib/python3.14/dist-packages/scitbx/math/tests/tst_superpose.py usr/lib/python3.14/dist-packages/scitbx/math/tests/tst_tetrahedron.py usr/lib/python3.14/dist-packages/scitbx/math/tests/tst_uniform_rotation_matrix.py usr/lib/python3.14/dist-packages/scitbx/math/tests/tst_weighted_correlation.py usr/lib/python3.14/dist-packages/scitbx/matrix/ usr/lib/python3.14/dist-packages/scitbx/matrix/__init__.py usr/lib/python3.14/dist-packages/scitbx/matrix/row_echelon.py usr/lib/python3.14/dist-packages/scitbx/matrix/tests/ usr/lib/python3.14/dist-packages/scitbx/matrix/tests/__init__.py usr/lib/python3.14/dist-packages/scitbx/matrix/tests/tst_householder.py usr/lib/python3.14/dist-packages/scitbx/matrix/tests/tst_row_echelon.py usr/lib/python3.14/dist-packages/scitbx/misc/ usr/lib/python3.14/dist-packages/scitbx/misc/__init__.py usr/lib/python3.14/dist-packages/scitbx/python_utils/ usr/lib/python3.14/dist-packages/scitbx/python_utils/__init__.py usr/lib/python3.14/dist-packages/scitbx/python_utils/command_line.py usr/lib/python3.14/dist-packages/scitbx/python_utils/dicts.py usr/lib/python3.14/dist-packages/scitbx/python_utils/graph_tools.py usr/lib/python3.14/dist-packages/scitbx/python_utils/misc.py usr/lib/python3.14/dist-packages/scitbx/python_utils/random_transform.py usr/lib/python3.14/dist-packages/scitbx/python_utils/robust_statistics.py usr/lib/python3.14/dist-packages/scitbx/python_utils/signal_utils.py usr/lib/python3.14/dist-packages/scitbx/python_utils/tst_graph.py usr/lib/python3.14/dist-packages/scitbx/python_utils/tst_random_transform.py usr/lib/python3.14/dist-packages/scitbx/python_utils/tst_robust.py usr/lib/python3.14/dist-packages/scitbx/random/ usr/lib/python3.14/dist-packages/scitbx/random/__init__.py usr/lib/python3.14/dist-packages/scitbx/random/boost_python/ usr/lib/python3.14/dist-packages/scitbx/random/boost_python/__init__.py usr/lib/python3.14/dist-packages/scitbx/random/tests/ usr/lib/python3.14/dist-packages/scitbx/random/tests/__init__.py usr/lib/python3.14/dist-packages/scitbx/random/tests/tst_random.py usr/lib/python3.14/dist-packages/scitbx/rigid_body/ usr/lib/python3.14/dist-packages/scitbx/rigid_body/__init__.py usr/lib/python3.14/dist-packages/scitbx/rigid_body/tst.py usr/lib/python3.14/dist-packages/scitbx/rigid_body/essence/ usr/lib/python3.14/dist-packages/scitbx/rigid_body/essence/__init__.py usr/lib/python3.14/dist-packages/scitbx/rigid_body/essence/body_lib.py usr/lib/python3.14/dist-packages/scitbx/rigid_body/essence/featherstone.py usr/lib/python3.14/dist-packages/scitbx/rigid_body/essence/joint_lib.py usr/lib/python3.14/dist-packages/scitbx/rigid_body/essence/make_bundles.py usr/lib/python3.14/dist-packages/scitbx/rigid_body/essence/spatial_lib.py usr/lib/python3.14/dist-packages/scitbx/rigid_body/essence/tardy.py usr/lib/python3.14/dist-packages/scitbx/rigid_body/essence/tst_basic.py usr/lib/python3.14/dist-packages/scitbx/rigid_body/essence/tst_energy_plots.py usr/lib/python3.14/dist-packages/scitbx/rigid_body/essence/tst_tardy.py usr/lib/python3.14/dist-packages/scitbx/rigid_body/essence/wx_tardy.py usr/lib/python3.14/dist-packages/scitbx/rigid_body/proto/ usr/lib/python3.14/dist-packages/scitbx/rigid_body/proto/__init__.py usr/lib/python3.14/dist-packages/scitbx/rigid_body/proto/featherstone.py usr/lib/python3.14/dist-packages/scitbx/rigid_body/proto/free_motion_reference_impl.py usr/lib/python3.14/dist-packages/scitbx/rigid_body/proto/joint_lib.py usr/lib/python3.14/dist-packages/scitbx/rigid_body/proto/test_simulation.py usr/lib/python3.14/dist-packages/scitbx/rigid_body/proto/test_utils.py usr/lib/python3.14/dist-packages/scitbx/rigid_body/proto/tst_featherstone.py usr/lib/python3.14/dist-packages/scitbx/rigid_body/proto/tst_free_motion.py usr/lib/python3.14/dist-packages/scitbx/rigid_body/proto/tst_free_motion_hard.py usr/lib/python3.14/dist-packages/scitbx/rigid_body/proto/tst_joint_lib.py usr/lib/python3.14/dist-packages/scitbx/rigid_body/proto/tst_molecules.py usr/lib/python3.14/dist-packages/scitbx/rigid_body/proto/tst_singular.py usr/lib/python3.14/dist-packages/scitbx/rigid_body/proto/tst_spherical_refinement.py usr/lib/python3.14/dist-packages/scitbx/rigid_body/proto/utils.py usr/lib/python3.14/dist-packages/scitbx/rigid_body/proto/wx_free_motion.py usr/lib/python3.14/dist-packages/scitbx/rigid_body/proto/wx_joint_lib.py usr/lib/python3.14/dist-packages/scitbx/rigid_body/proto/wx_molecules.py usr/lib/python3.14/dist-packages/scitbx/serialization/ usr/lib/python3.14/dist-packages/scitbx/serialization/__init__.py usr/lib/python3.14/dist-packages/scitbx/slatec/ usr/lib/python3.14/dist-packages/scitbx/slatec/__init__.py usr/lib/python3.14/dist-packages/scitbx/source_generators/ usr/lib/python3.14/dist-packages/scitbx/source_generators/__init__.py usr/lib/python3.14/dist-packages/scitbx/source_generators/flex_fwd_h.py usr/lib/python3.14/dist-packages/scitbx/source_generators/lbfgs_fem.py usr/lib/python3.14/dist-packages/scitbx/source_generators/utils.py usr/lib/python3.14/dist-packages/scitbx/source_generators/array_family/ usr/lib/python3.14/dist-packages/scitbx/source_generators/array_family/__init__.py usr/lib/python3.14/dist-packages/scitbx/source_generators/array_family/generate_algebras.py usr/lib/python3.14/dist-packages/scitbx/source_generators/array_family/generate_all.py usr/lib/python3.14/dist-packages/scitbx/source_generators/array_family/generate_apply.py usr/lib/python3.14/dist-packages/scitbx/source_generators/array_family/generate_operator_functors.py usr/lib/python3.14/dist-packages/scitbx/source_generators/array_family/generate_operator_traits_builtin.py usr/lib/python3.14/dist-packages/scitbx/source_generators/array_family/generate_reductions.py usr/lib/python3.14/dist-packages/scitbx/source_generators/array_family/generate_std_imports.py usr/lib/python3.14/dist-packages/scitbx/source_generators/array_family/operator_functor_info.py usr/lib/python3.14/dist-packages/scitbx/sparse/ usr/lib/python3.14/dist-packages/scitbx/sparse/__init__.py usr/lib/python3.14/dist-packages/scitbx/sparse/boost_python/ usr/lib/python3.14/dist-packages/scitbx/sparse/boost_python/__init__.py usr/lib/python3.14/dist-packages/scitbx/sparse/tests/ usr/lib/python3.14/dist-packages/scitbx/sparse/tests/__init__.py usr/lib/python3.14/dist-packages/scitbx/sparse/tests/tst_lu_factorization.py usr/lib/python3.14/dist-packages/scitbx/sparse/tests/tst_sparse.py usr/lib/python3.14/dist-packages/scitbx/stdlib/ usr/lib/python3.14/dist-packages/scitbx/stdlib/__init__.py usr/lib/python3.14/dist-packages/scitbx/stl/ usr/lib/python3.14/dist-packages/scitbx/stl/__init__.py usr/lib/python3.14/dist-packages/scitbx/stl/map.py usr/lib/python3.14/dist-packages/scitbx/stl/set.py usr/lib/python3.14/dist-packages/scitbx/stl/tst_map.py usr/lib/python3.14/dist-packages/scitbx/stl/tst_set.py usr/lib/python3.14/dist-packages/scitbx/stl/tst_vector.py usr/lib/python3.14/dist-packages/scitbx/stl/vector.py usr/lib/python3.14/dist-packages/scitbx/suffixtree/ usr/lib/python3.14/dist-packages/scitbx/suffixtree/__init__.py usr/lib/python3.14/dist-packages/scitbx/suffixtree/single.py usr/lib/python3.14/dist-packages/scitbx/suffixtree/boost_python/ usr/lib/python3.14/dist-packages/scitbx/suffixtree/boost_python/__init__.py usr/lib/python3.14/dist-packages/scitbx/suffixtree/test/ usr/lib/python3.14/dist-packages/scitbx/suffixtree/test/__init__.py usr/lib/python3.14/dist-packages/scitbx/suffixtree/test/tst_single.py usr/lib/python3.14/dist-packages/scitbx/tests/ usr/lib/python3.14/dist-packages/scitbx/tests/__init__.py usr/lib/python3.14/dist-packages/scitbx/tests/differential_evolution.py usr/lib/python3.14/dist-packages/scitbx/tests/direct_search_simulated_annealing.py usr/lib/python3.14/dist-packages/scitbx/tests/golden_section_search.py usr/lib/python3.14/dist-packages/scitbx/tests/simplex.py usr/lib/python3.14/dist-packages/scitbx/tests/tst_basic.py usr/lib/python3.14/dist-packages/scitbx/tests/tst_cubicle_neighbors.py usr/lib/python3.14/dist-packages/scitbx/tests/tst_genetic_algorithm_with_mp.py usr/lib/python3.14/dist-packages/scitbx/tests/tst_minimizer_lbfgs_general.py usr/lib/python3.14/dist-packages/scitbx/tests/tst_r3_utils.py usr/lib/python3.14/dist-packages/scitbx/tests/tst_regular_grid_on_unit_sphere.py usr/lib/python3.14/dist-packages/scitbx/tests/tst_smoothing.py usr/lib/python3.14/dist-packages/scitbx/wigner/ usr/lib/python3.14/dist-packages/scitbx/wigner/__init__.py usr/lib/python3.14/dist-packages/scitbx/wigner/tst_wigner3j.py usr/lib/python3.14/dist-packages/serialtbx/ usr/lib/python3.14/dist-packages/serialtbx/__init__.py usr/lib/python3.14/dist-packages/serialtbx/detector/ usr/lib/python3.14/dist-packages/serialtbx/detector/__init__.py usr/lib/python3.14/dist-packages/serialtbx/detector/cspad.py usr/lib/python3.14/dist-packages/serialtbx/detector/jungfrau.py usr/lib/python3.14/dist-packages/serialtbx/detector/rayonix.py usr/lib/python3.14/dist-packages/serialtbx/detector/xtc.py usr/lib/python3.14/dist-packages/serialtbx/detector/legacy_metrology/ usr/lib/python3.14/dist-packages/serialtbx/detector/legacy_metrology/__init__.py usr/lib/python3.14/dist-packages/serialtbx/detector/legacy_metrology/cspad_detector.py usr/lib/python3.14/dist-packages/serialtbx/detector/legacy_metrology/generic_detector.py usr/lib/python3.14/dist-packages/serialtbx/detector/legacy_metrology/metrology.py usr/lib/python3.14/dist-packages/serialtbx/mono_simulation/ usr/lib/python3.14/dist-packages/serialtbx/mono_simulation/__init__.py usr/lib/python3.14/dist-packages/serialtbx/mono_simulation/max_like.py usr/lib/python3.14/dist-packages/serialtbx/mono_simulation/util.py usr/lib/python3.14/dist-packages/serialtbx/util/ usr/lib/python3.14/dist-packages/serialtbx/util/__init__.py usr/lib/python3.14/dist-packages/serialtbx/util/construct_frame.py usr/lib/python3.14/dist-packages/serialtbx/util/energy_scan_notch_finder.py usr/lib/python3.14/dist-packages/serialtbx/util/time.py usr/lib/python3.14/dist-packages/simtbx/ usr/lib/python3.14/dist-packages/simtbx/__init__.py usr/lib/python3.14/dist-packages/simtbx/run_tests.py usr/lib/python3.14/dist-packages/simtbx/diffBragg/ usr/lib/python3.14/dist-packages/simtbx/diffBragg/__init__.py usr/lib/python3.14/dist-packages/simtbx/diffBragg/attr_list.py usr/lib/python3.14/dist-packages/simtbx/diffBragg/device.py usr/lib/python3.14/dist-packages/simtbx/diffBragg/ensemble_refine_launcher.py usr/lib/python3.14/dist-packages/simtbx/diffBragg/hopper_ensemble_utils.py usr/lib/python3.14/dist-packages/simtbx/diffBragg/hopper_io.py usr/lib/python3.14/dist-packages/simtbx/diffBragg/hopper_utils.py usr/lib/python3.14/dist-packages/simtbx/diffBragg/mpi_logger.py usr/lib/python3.14/dist-packages/simtbx/diffBragg/parameter_errors.py usr/lib/python3.14/dist-packages/simtbx/diffBragg/phil.py usr/lib/python3.14/dist-packages/simtbx/diffBragg/prep_stage2_input.py usr/lib/python3.14/dist-packages/simtbx/diffBragg/psf.py usr/lib/python3.14/dist-packages/simtbx/diffBragg/stage_two_utils.py usr/lib/python3.14/dist-packages/simtbx/diffBragg/utils.py usr/lib/python3.14/dist-packages/simtbx/diffBragg/refiners/ usr/lib/python3.14/dist-packages/simtbx/diffBragg/refiners/__init__.py usr/lib/python3.14/dist-packages/simtbx/diffBragg/refiners/base_refiner.py usr/lib/python3.14/dist-packages/simtbx/diffBragg/refiners/geometry.py usr/lib/python3.14/dist-packages/simtbx/diffBragg/refiners/parameters.py usr/lib/python3.14/dist-packages/simtbx/diffBragg/refiners/stage_two_refiner.py usr/lib/python3.14/dist-packages/simtbx/diffBragg/refiners/crystal_systems/ usr/lib/python3.14/dist-packages/simtbx/diffBragg/refiners/crystal_systems/__init__.py usr/lib/python3.14/dist-packages/simtbx/diffBragg/refiners/crystal_systems/hexagonal.py usr/lib/python3.14/dist-packages/simtbx/diffBragg/refiners/crystal_systems/manager.py usr/lib/python3.14/dist-packages/simtbx/diffBragg/refiners/crystal_systems/monoclinic.py usr/lib/python3.14/dist-packages/simtbx/diffBragg/refiners/crystal_systems/orthorhombic.py usr/lib/python3.14/dist-packages/simtbx/diffBragg/refiners/crystal_systems/tetragonal.py usr/lib/python3.14/dist-packages/simtbx/gpu/ usr/lib/python3.14/dist-packages/simtbx/gpu/__init__.py usr/lib/python3.14/dist-packages/simtbx/gpu/tst_exafel_api.py usr/lib/python3.14/dist-packages/simtbx/gpu/tst_gpu_multisource_background.py usr/lib/python3.14/dist-packages/simtbx/gpu/tst_shoeboxes.py usr/lib/python3.14/dist-packages/simtbx/kokkos/ usr/lib/python3.14/dist-packages/simtbx/kokkos/__init__.py usr/lib/python3.14/dist-packages/simtbx/kokkos/tst_kokkos_lib.py usr/lib/python3.14/dist-packages/simtbx/modeling/ usr/lib/python3.14/dist-packages/simtbx/modeling/FormatHDF5AttributeGeometry.py usr/lib/python3.14/dist-packages/simtbx/modeling/__init__.py usr/lib/python3.14/dist-packages/simtbx/modeling/forward_models.py usr/lib/python3.14/dist-packages/simtbx/modeling/predictions.py usr/lib/python3.14/dist-packages/simtbx/nanoBragg/ usr/lib/python3.14/dist-packages/simtbx/nanoBragg/__init__.py usr/lib/python3.14/dist-packages/simtbx/nanoBragg/anisotropic_mosaicity.py usr/lib/python3.14/dist-packages/simtbx/nanoBragg/nanoBragg_beam.py usr/lib/python3.14/dist-packages/simtbx/nanoBragg/nanoBragg_crystal.py usr/lib/python3.14/dist-packages/simtbx/nanoBragg/nanoBragg_gui_dialogs.py usr/lib/python3.14/dist-packages/simtbx/nanoBragg/nanoBragg_gui_frames.py usr/lib/python3.14/dist-packages/simtbx/nanoBragg/nanoBragg_gui_init.py usr/lib/python3.14/dist-packages/simtbx/nanoBragg/nanoBragg_input.py usr/lib/python3.14/dist-packages/simtbx/nanoBragg/nanoBragg_threads.py usr/lib/python3.14/dist-packages/simtbx/nanoBragg/sim_data.py usr/lib/python3.14/dist-packages/simtbx/nanoBragg/tst_anisotropic_mosaicity.py usr/lib/python3.14/dist-packages/simtbx/nanoBragg/tst_gauss_argchk.py usr/lib/python3.14/dist-packages/simtbx/nanoBragg/tst_gaussian_mosaicity.py usr/lib/python3.14/dist-packages/simtbx/nanoBragg/tst_gaussian_mosaicity2.py usr/lib/python3.14/dist-packages/simtbx/nanoBragg/tst_multisource_background.py usr/lib/python3.14/dist-packages/simtbx/nanoBragg/tst_nanoBragg_basic.py usr/lib/python3.14/dist-packages/simtbx/nanoBragg/tst_nanoBragg_cbf_write.py usr/lib/python3.14/dist-packages/simtbx/nanoBragg/tst_nanoBragg_minimal.py usr/lib/python3.14/dist-packages/simtbx/nanoBragg/tst_nanoBragg_mosaic.py usr/lib/python3.14/dist-packages/simtbx/nanoBragg/tst_nanoBragg_multipanel.py usr/lib/python3.14/dist-packages/simtbx/nanoBragg/tst_nanoBragg_pilatus.py usr/lib/python3.14/dist-packages/simtbx/nanoBragg/utils.py usr/lib/python3.14/dist-packages/simtbx/pixel/ usr/lib/python3.14/dist-packages/simtbx/pixel/__init__.py usr/lib/python3.14/dist-packages/smtbx/ usr/lib/python3.14/dist-packages/smtbx/__init__.py usr/lib/python3.14/dist-packages/smtbx/development.py usr/lib/python3.14/dist-packages/smtbx/libtbx_refresh.py usr/lib/python3.14/dist-packages/smtbx/run_tests.py usr/lib/python3.14/dist-packages/smtbx/utils.py usr/lib/python3.14/dist-packages/smtbx/ab_initio/ usr/lib/python3.14/dist-packages/smtbx/ab_initio/__init__.py usr/lib/python3.14/dist-packages/smtbx/ab_initio/charge_flipping.py usr/lib/python3.14/dist-packages/smtbx/ab_initio/tests/ usr/lib/python3.14/dist-packages/smtbx/ab_initio/tests/__init__.py usr/lib/python3.14/dist-packages/smtbx/ab_initio/tests/tst_ab_initio_ext.py usr/lib/python3.14/dist-packages/smtbx/ab_initio/tests/tst_charge_flipping.py usr/lib/python3.14/dist-packages/smtbx/absolute_structure/ usr/lib/python3.14/dist-packages/smtbx/absolute_structure/__init__.py usr/lib/python3.14/dist-packages/smtbx/array_family/ usr/lib/python3.14/dist-packages/smtbx/array_family/__init__.py usr/lib/python3.14/dist-packages/smtbx/command_line/ usr/lib/python3.14/dist-packages/smtbx/command_line/__init__.py usr/lib/python3.14/dist-packages/smtbx/command_line/absolute_structure.py usr/lib/python3.14/dist-packages/smtbx/command_line/anom_refine.py usr/lib/python3.14/dist-packages/smtbx/command_line/benchmark_refinement.py usr/lib/python3.14/dist-packages/smtbx/command_line/masks.py usr/lib/python3.14/dist-packages/smtbx/command_line/refine.py usr/lib/python3.14/dist-packages/smtbx/masks/ usr/lib/python3.14/dist-packages/smtbx/masks/__init__.py usr/lib/python3.14/dist-packages/smtbx/refinement/ usr/lib/python3.14/dist-packages/smtbx/refinement/__init__.py usr/lib/python3.14/dist-packages/smtbx/refinement/least_squares.py usr/lib/python3.14/dist-packages/smtbx/refinement/weighting_schemes.py usr/lib/python3.14/dist-packages/smtbx/refinement/constraints/ usr/lib/python3.14/dist-packages/smtbx/refinement/constraints/__init__.py usr/lib/python3.14/dist-packages/smtbx/refinement/constraints/adp.py usr/lib/python3.14/dist-packages/smtbx/refinement/constraints/all.py usr/lib/python3.14/dist-packages/smtbx/refinement/constraints/fpfdp.py usr/lib/python3.14/dist-packages/smtbx/refinement/constraints/occupancy.py usr/lib/python3.14/dist-packages/smtbx/refinement/constraints/rigid.py usr/lib/python3.14/dist-packages/smtbx/refinement/constraints/site.py usr/lib/python3.14/dist-packages/smtbx/refinement/constraints/geometrical/ usr/lib/python3.14/dist-packages/smtbx/refinement/constraints/geometrical/__init__.py usr/lib/python3.14/dist-packages/smtbx/refinement/constraints/geometrical/all.py usr/lib/python3.14/dist-packages/smtbx/refinement/constraints/geometrical/hydrogens.py usr/lib/python3.14/dist-packages/smtbx/refinement/constraints/tests/ usr/lib/python3.14/dist-packages/smtbx/refinement/constraints/tests/__init__.py usr/lib/python3.14/dist-packages/smtbx/refinement/constraints/tests/tst_constrained_structure.py usr/lib/python3.14/dist-packages/smtbx/refinement/constraints/tests/tst_direction.py usr/lib/python3.14/dist-packages/smtbx/refinement/constraints/tests/tst_disorder.py usr/lib/python3.14/dist-packages/smtbx/refinement/constraints/tests/tst_lbfgs.py usr/lib/python3.14/dist-packages/smtbx/refinement/constraints/tests/tst_occupancies.py usr/lib/python3.14/dist-packages/smtbx/refinement/constraints/tests/tst_reparametrisation.py usr/lib/python3.14/dist-packages/smtbx/refinement/constraints/tests/tst_rigid.py usr/lib/python3.14/dist-packages/smtbx/refinement/constraints/tests/tst_same_group.py usr/lib/python3.14/dist-packages/smtbx/refinement/restraints/ usr/lib/python3.14/dist-packages/smtbx/refinement/restraints/__init__.py usr/lib/python3.14/dist-packages/smtbx/refinement/restraints/adp_restraints.py usr/lib/python3.14/dist-packages/smtbx/refinement/restraints/origin_fixing_restraints.py usr/lib/python3.14/dist-packages/smtbx/regression/ usr/lib/python3.14/dist-packages/smtbx/regression/__init__.py usr/lib/python3.14/dist-packages/smtbx/regression/tst_commandline_anomrefine.py usr/lib/python3.14/dist-packages/smtbx/regression/tst_commandline_refine.py usr/lib/python3.14/dist-packages/smtbx/regression/test_data/ usr/lib/python3.14/dist-packages/smtbx/regression/test_data/__init__.py usr/lib/python3.14/dist-packages/smtbx/source_generators/ usr/lib/python3.14/dist-packages/smtbx/source_generators/__init__.py usr/lib/python3.14/dist-packages/smtbx/source_generators/flex_fwd_h.py usr/lib/python3.14/dist-packages/smtbx/stl/ usr/lib/python3.14/dist-packages/smtbx/stl/__init__.py usr/lib/python3.14/dist-packages/smtbx/stl/map.py usr/lib/python3.14/dist-packages/smtbx/structure_factors/ usr/lib/python3.14/dist-packages/smtbx/structure_factors/__init__.py usr/lib/python3.14/dist-packages/smtbx/structure_factors/direct/ usr/lib/python3.14/dist-packages/smtbx/structure_factors/direct/__init__.py usr/lib/python3.14/dist-packages/spotfinder/ usr/lib/python3.14/dist-packages/spotfinder/__init__.py usr/lib/python3.14/dist-packages/spotfinder/exception.py usr/lib/python3.14/dist-packages/spotfinder/run_tests.py usr/lib/python3.14/dist-packages/spotfinder/applications/ usr/lib/python3.14/dist-packages/spotfinder/applications/__init__.py usr/lib/python3.14/dist-packages/spotfinder/applications/image_viewer.py usr/lib/python3.14/dist-packages/spotfinder/applications/practical_heuristics.py usr/lib/python3.14/dist-packages/spotfinder/applications/signal_strength.py usr/lib/python3.14/dist-packages/spotfinder/applications/stats_distl.py usr/lib/python3.14/dist-packages/spotfinder/applications/wrappers.py usr/lib/python3.14/dist-packages/spotfinder/applications/heuristic_tbx/ usr/lib/python3.14/dist-packages/spotfinder/applications/heuristic_tbx/__init__.py usr/lib/python3.14/dist-packages/spotfinder/applications/heuristic_tbx/ice2.py usr/lib/python3.14/dist-packages/spotfinder/applications/heuristic_tbx/ice_nztt.py usr/lib/python3.14/dist-packages/spotfinder/applications/heuristic_tbx/method2_resolution.py usr/lib/python3.14/dist-packages/spotfinder/applications/heuristic_tbx/spotreporter.py usr/lib/python3.14/dist-packages/spotfinder/applications/xfel/ usr/lib/python3.14/dist-packages/spotfinder/applications/xfel/__init__.py usr/lib/python3.14/dist-packages/spotfinder/applications/xfel/correction_vector_plot.py usr/lib/python3.14/dist-packages/spotfinder/applications/xfel/cxi_phil.py usr/lib/python3.14/dist-packages/spotfinder/applications/xfel/cxi_run3.py usr/lib/python3.14/dist-packages/spotfinder/array_family/ usr/lib/python3.14/dist-packages/spotfinder/array_family/__init__.py usr/lib/python3.14/dist-packages/spotfinder/array_family/flex.py usr/lib/python3.14/dist-packages/spotfinder/command_line/ usr/lib/python3.14/dist-packages/spotfinder/command_line/__init__.py usr/lib/python3.14/dist-packages/spotfinder/command_line/find_active_area.py usr/lib/python3.14/dist-packages/spotfinder/command_line/image_viewer.py usr/lib/python3.14/dist-packages/spotfinder/command_line/mp_spotfinder_server_read_file.py usr/lib/python3.14/dist-packages/spotfinder/command_line/signal_strength.py usr/lib/python3.14/dist-packages/spotfinder/command_line/sweep_strength.py usr/lib/python3.14/dist-packages/spotfinder/command_line/thin_client.py usr/lib/python3.14/dist-packages/spotfinder/core_toolbox/ usr/lib/python3.14/dist-packages/spotfinder/core_toolbox/__init__.py usr/lib/python3.14/dist-packages/spotfinder/core_toolbox/close_spots_detail.py usr/lib/python3.14/dist-packages/spotfinder/diffraction/ usr/lib/python3.14/dist-packages/spotfinder/diffraction/__init__.py usr/lib/python3.14/dist-packages/spotfinder/diffraction/geometry.py usr/lib/python3.14/dist-packages/spotfinder/diffraction/imagefiles.py usr/lib/python3.14/dist-packages/spotfinder/dxtbx_toolbox/ usr/lib/python3.14/dist-packages/spotfinder/dxtbx_toolbox/__init__.py usr/lib/python3.14/dist-packages/spotfinder/dxtbx_toolbox/practical_heuristics.py usr/lib/python3.14/dist-packages/spotfinder/math_support/ usr/lib/python3.14/dist-packages/spotfinder/math_support/__init__.py usr/lib/python3.14/dist-packages/spotfinder/math_support/sphere_formulae.py usr/lib/python3.14/dist-packages/spotfinder/servers/ usr/lib/python3.14/dist-packages/spotfinder/servers/__init__.py usr/lib/python3.14/dist-packages/spotfinder/servers/adsc_client.py usr/lib/python3.14/dist-packages/spotfinder/servers/apache.py usr/lib/python3.14/dist-packages/spotfinder/servers/apache_bcsb.py usr/lib/python3.14/dist-packages/spotfinder/servers/apache_dials.py usr/lib/python3.14/dist-packages/spotfinder/servers/apache_utils.py usr/lib/python3.14/dist-packages/spotfinder/servers/bcsb_client_example.py usr/lib/python3.14/dist-packages/spotfinder/servers/general_client_example.py usr/lib/python3.14/dist-packages/spotfinder/servers/mp_spotfinder_server_is_alive.py usr/lib/python3.14/dist-packages/spotfinder/servers/mp_spotfinder_server_read_file.py usr/lib/python3.14/dist-packages/spotfinder/servers/multipart_encoder.py usr/lib/python3.14/dist-packages/spotfinder/servers/pilatus_client.py usr/lib/python3.14/dist-packages/spotfinder/servers/specific_client_example.py usr/lib/python3.14/dist-packages/spotfinder/servers/spotfinder_server_client_push.py usr/lib/python3.14/dist-packages/spotfinder/servers/spotfinder_server_read_file.py usr/lib/python3.14/dist-packages/spotfinder/servers/thin_client.py usr/lib/python3.14/dist-packages/wxtbx/ usr/lib/python3.14/dist-packages/wxtbx/__init__.py usr/lib/python3.14/dist-packages/wxtbx/adp_statistics.py usr/lib/python3.14/dist-packages/wxtbx/anomalous_scattering.py usr/lib/python3.14/dist-packages/wxtbx/app.py usr/lib/python3.14/dist-packages/wxtbx/b_plot.py usr/lib/python3.14/dist-packages/wxtbx/bitmaps.py usr/lib/python3.14/dist-packages/wxtbx/browser.py usr/lib/python3.14/dist-packages/wxtbx/checklistctrl.py usr/lib/python3.14/dist-packages/wxtbx/custom_restraints.py usr/lib/python3.14/dist-packages/wxtbx/ensemble_validation.py usr/lib/python3.14/dist-packages/wxtbx/errors.py usr/lib/python3.14/dist-packages/wxtbx/heavy_atoms.py usr/lib/python3.14/dist-packages/wxtbx/icons.py usr/lib/python3.14/dist-packages/wxtbx/info_panels.py usr/lib/python3.14/dist-packages/wxtbx/layout.py usr/lib/python3.14/dist-packages/wxtbx/listeditor.py usr/lib/python3.14/dist-packages/wxtbx/metallicbutton.py usr/lib/python3.14/dist-packages/wxtbx/misc_dialogs.py usr/lib/python3.14/dist-packages/wxtbx/monitor.py usr/lib/python3.14/dist-packages/wxtbx/mtz_dump.py usr/lib/python3.14/dist-packages/wxtbx/path_dialogs.py usr/lib/python3.14/dist-packages/wxtbx/pdb_editor.py usr/lib/python3.14/dist-packages/wxtbx/polygon.py usr/lib/python3.14/dist-packages/wxtbx/polygon_db_viewer.py usr/lib/python3.14/dist-packages/wxtbx/process_control.py usr/lib/python3.14/dist-packages/wxtbx/qstat_view.py usr/lib/python3.14/dist-packages/wxtbx/segmentedctrl.py usr/lib/python3.14/dist-packages/wxtbx/sequence_view.py usr/lib/python3.14/dist-packages/wxtbx/symmetry_dialog.py usr/lib/python3.14/dist-packages/wxtbx/tables.py usr/lib/python3.14/dist-packages/wxtbx/utils.py usr/lib/python3.14/dist-packages/wxtbx/windows.py usr/lib/python3.14/dist-packages/wxtbx/wx4_compatibility.py usr/lib/python3.14/dist-packages/wxtbx/xtriage.py usr/lib/python3.14/dist-packages/wxtbx/command_line/ usr/lib/python3.14/dist-packages/wxtbx/command_line/__init__.py usr/lib/python3.14/dist-packages/wxtbx/command_line/anomalous_differences_histogram.py usr/lib/python3.14/dist-packages/wxtbx/command_line/b_plot.py usr/lib/python3.14/dist-packages/wxtbx/command_line/inspect_r_free_flags.py usr/lib/python3.14/dist-packages/wxtbx/command_line/loggraph.py usr/lib/python3.14/dist-packages/wxtbx/command_line/pdb_editor.py usr/lib/python3.14/dist-packages/wxtbx/command_line/pdb_statistics.py usr/lib/python3.14/dist-packages/wxtbx/command_line/plan_sad_experiment.py usr/lib/python3.14/dist-packages/wxtbx/command_line/plot_anomalous_scattering.py usr/lib/python3.14/dist-packages/wxtbx/command_line/show_file_info.py usr/lib/python3.14/dist-packages/wxtbx/command_line/wxpython.py usr/lib/python3.14/dist-packages/wxtbx/command_line/xtriage.py usr/lib/python3.14/dist-packages/wxtbx/phil_controls/ usr/lib/python3.14/dist-packages/wxtbx/phil_controls/__init__.py usr/lib/python3.14/dist-packages/wxtbx/phil_controls/array_label.py usr/lib/python3.14/dist-packages/wxtbx/phil_controls/boolctrl.py usr/lib/python3.14/dist-packages/wxtbx/phil_controls/choice.py usr/lib/python3.14/dist-packages/wxtbx/phil_controls/choice_multi.py usr/lib/python3.14/dist-packages/wxtbx/phil_controls/floatctrl.py usr/lib/python3.14/dist-packages/wxtbx/phil_controls/floats.py usr/lib/python3.14/dist-packages/wxtbx/phil_controls/intctrl.py usr/lib/python3.14/dist-packages/wxtbx/phil_controls/ints.py usr/lib/python3.14/dist-packages/wxtbx/phil_controls/misc_ctrls.py usr/lib/python3.14/dist-packages/wxtbx/phil_controls/numbers.py usr/lib/python3.14/dist-packages/wxtbx/phil_controls/path.py usr/lib/python3.14/dist-packages/wxtbx/phil_controls/simple_dialogs.py usr/lib/python3.14/dist-packages/wxtbx/phil_controls/space_group.py usr/lib/python3.14/dist-packages/wxtbx/phil_controls/strctrl.py usr/lib/python3.14/dist-packages/wxtbx/phil_controls/strings.py usr/lib/python3.14/dist-packages/wxtbx/phil_controls/symop.py usr/lib/python3.14/dist-packages/wxtbx/phil_controls/text_base.py usr/lib/python3.14/dist-packages/wxtbx/phil_controls/tree.py usr/lib/python3.14/dist-packages/wxtbx/phil_controls/tribool.py usr/lib/python3.14/dist-packages/wxtbx/phil_controls/unit_cell.py usr/lib/python3.14/dist-packages/wxtbx/plots/ usr/lib/python3.14/dist-packages/wxtbx/plots/__init__.py usr/lib/python3.14/dist-packages/wxtbx/plots/emringer.py usr/lib/python3.14/dist-packages/wxtbx/plots/molprobity.py usr/lib/python3.14/dist-packages/wxtbx/reports/ usr/lib/python3.14/dist-packages/wxtbx/reports/__init__.py usr/lib/python3.14/dist-packages/wxtbx/reports/blast.py usr/lib/python3.14/dist-packages/wxtbx/reports/pdb_symmetry.py usr/lib/python3.14/dist-packages/xcif/ usr/lib/python3.14/dist-packages/xcif/__init__.py usr/lib/python3.14/dist-packages/xcif/run_tests.py usr/lib/python3.14/dist-packages/xcif/benchmarks/ usr/lib/python3.14/dist-packages/xcif/benchmarks/__init__.py usr/lib/python3.14/dist-packages/xcif/benchmarks/run_benchmarks.py usr/lib/python3.14/dist-packages/xcif/regression/ usr/lib/python3.14/dist-packages/xcif/regression/__init__.py usr/lib/python3.14/dist-packages/xcif/regression/tst_api_compat.py usr/lib/python3.14/dist-packages/xcif/regression/tst_bindings.py usr/lib/python3.14/dist-packages/xcif/regression/tst_example_parse.py usr/lib/python3.14/dist-packages/xcif/regression/tst_example_tokenize.py usr/lib/python3.14/dist-packages/xcif/regression/tst_gil_release.py usr/lib/python3.14/dist-packages/xcif/regression/tst_iotbx_cif_reader_engine.py usr/lib/python3.14/dist-packages/xcif/regression/tst_iotbx_cif_reader_parity.py usr/lib/python3.14/dist-packages/xcif/regression/tst_memory.py usr/lib/python3.14/dist-packages/xcif/regression/tst_non_strict_mode.py usr/lib/python3.14/dist-packages/xcif/regression/tst_parse_verify.py usr/lib/python3.14/dist-packages/xcif/regression/tst_pdb_coordinates.py usr/lib/python3.14/dist-packages/xcif/regression/tst_pdb_sf.py usr/lib/python3.14/dist-packages/xcif/regression/tst_quoted_string_delimiter.py usr/lib/python3.14/dist-packages/xcif/regression/tst_roundtrip.py usr/lib/python3.14/dist-packages/xcif/regression/tst_semicolon_field_strict.py usr/lib/python3.14/dist-packages/xcif/regression/tst_string_interning.py usr/lib/python3.14/dist-packages/xcif/regression/tst_utf8.py sent 2,233,015,681 bytes received 144,981 bytes 343,563,178.77 bytes/sec total size is 2,231,926,402 speedup is 1.00 dh_auto_build -- --name cctbx -s custom --build-args="debian/install-cctbx.sh -- --destdir=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp --pyver={version} --srcdir=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 --builddir={build_dir}_ --modules='annlib_adaptbx boost_adaptbx cbflib_adaptbx ccp4io_adaptbx cctbx cma_es crys3d dxtbx fable gltbx iotbx libtbx mmtbx omptbx rstbx scitbx serialtbx smtbx spotfinder tbxx wxtbx'" pybuild --build -i python{version} -p "3.14 3.13" --name cctbx -s custom --build-args="debian/install-cctbx.sh -- --destdir=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp --pyver={version} --srcdir=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 --builddir={build_dir}_ --modules='annlib_adaptbx boost_adaptbx cbflib_adaptbx ccp4io_adaptbx cctbx cma_es crys3d dxtbx fable gltbx iotbx libtbx mmtbx omptbx rstbx scitbx serialtbx smtbx spotfinder tbxx wxtbx'" --parallel=6 I: pybuild base:385: debian/install-cctbx.sh -- --destdir=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp --pyver=3.14 --srcdir=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 --builddir='/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build'_ --modules='annlib_adaptbx boost_adaptbx cbflib_adaptbx ccp4io_adaptbx cctbx cma_es crys3d dxtbx fable gltbx iotbx libtbx mmtbx omptbx rstbx scitbx serialtbx smtbx spotfinder tbxx wxtbx' debian/install-cctbx.sh: line 7: 0: command not found --destdir '/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp' --pyver '3.14' --srcdir '/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1' --builddir '/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_' --modules 'annlib_adaptbx boost_adaptbx cbflib_adaptbx ccp4io_adaptbx cctbx cma_es crys3d dxtbx fable gltbx iotbx libtbx mmtbx omptbx rstbx scitbx serialtbx smtbx spotfinder tbxx wxtbx' -- Installing CCTBX into a FHS system Modules: annlib_adaptbx boost_adaptbx cbflib_adaptbx ccp4io_adaptbx cctbx cma_es crys3d dxtbx fable gltbx iotbx libtbx mmtbx omptbx rstbx scitbx serialtbx smtbx spotfinder tbxx wxtbx From the source /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 and build /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_ To the FHS : destdir /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp pyver 3.14 bindir /usr/bin incdir /usr/include pkglibdir /usr/lib/cctbx/python3.14 libdir /usr/lib/x86_64-linux-gnu pythondir /usr/lib/python3.14/dist-packages with PYTHONPATH /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build Copying libtbx_env from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.14_cctbx/build_ to /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14 {'_dispatcher_include_at_start': [], '_dispatcher_include_before_command': [], '_dispatcher_precall_commands': None, '_dispatcher_registry': {relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="bin/libtbx.start_binary_bundle"): relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="../../../libtbx/command_line/start_binary_bundle.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="bin/libtbx.find_under_build"): relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="../../../libtbx/command_line/find_under_build.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="bin/libtbx.start_process"): relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="../../../libtbx/command_line/start_process.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="bin/libtbx.create_mac_app"): relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="../../../libtbx/command_line/create_mac_app.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="bin/libtbx.import_all_python"): relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="../../../libtbx/command_line/import_all_python.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="bin/libtbx.show_number_of_processors"): relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="../../../libtbx/command_line/show_number_of_processors.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="bin/libtbx.pdflatex"): relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="../../../libtbx/command_line/pdflatex.sh"), relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="bin/libtbx.remote_processing"): relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="../../../libtbx/command_line/remote_processing.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="bin/libtbx.show_repository_paths"): relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="../../../libtbx/command_line/show_repository_paths.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="bin/libtbx.show_numeric_version"): relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="../../../libtbx/command_line/show_numeric_version.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="bin/libtbx.help"): relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="../../../libtbx/command_line/help.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="bin/libtbx.csh"): relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="../../../libtbx/command_line/csh.sh"), relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="bin/libtbx.show_include_paths"): relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="../../../libtbx/command_line/show_include_paths.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="bin/libtbx.show_build_path"): relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="../../../libtbx/command_line/show_build_path.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="bin/libtbx.parallel_simple"): relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="../../../libtbx/command_line/parallel_simple.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="bin/libtbx.find_unused_imports"): relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="../../../libtbx/command_line/find_unused_imports.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="bin/libtbx.create_windows_exe"): relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="../../../libtbx/command_line/create_windows_exe.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="bin/libtbx.env_run"): relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="../../../libtbx/command_line/env_run.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="bin/libtbx.show_python_dependencies"): relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="../../../libtbx/command_line/show_python_dependencies.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="bin/libtbx.nequal"): relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="../../../libtbx/command_line/nequal.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="bin/libtbx.show_commands"): relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="../../../libtbx/command_line/show_commands.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="bin/libtbx.show_build_options"): relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="../../../libtbx/command_line/show_build_options.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="bin/libtbx.show_all_on_path"): relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="../../../libtbx/command_line/show_all_on_path.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="bin/libtbx.analyse_code_comments"): relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="../../../libtbx/command_line/analyse_code_comments.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="bin/libtbx.find_pdb_mmcif_problems"): relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", 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relocatable="../../../spotfinder/command_line/sweep_strength.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="bin/distl.find_active_area"): relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="../../../spotfinder/command_line/find_active_area.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="bin/distl.mp_spotfinder_server_read_file"): relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="../../../spotfinder/command_line/mp_spotfinder_server_read_file.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="bin/rstbx.simage.solver"): 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relocatable="../../../wxtbx/command_line/plan_sad_experiment.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="bin/wxtbx.xtriage"): relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="../../../wxtbx/command_line/xtriage.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="bin/mmtbx.xtriage_gui"): relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="../../../wxtbx/command_line/xtriage.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="bin/cctbx.plot_anomalous_scattering"): 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relocatable="bin/libtbx.assert_not_show_diff"): relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="../../../libtbx/command_line/assert_not_show_diff.py")}, 'bin_path': relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="bin"), 'boost_version': 109000, 'build_options': , 'build_path': absolute_path("/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14"), 'command_line_redirections': {}, 'command_version_suffix': None, 'dispatcher_name': None, 'exe_path': relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="exe"), 'explicitly_requested_modules': {'annlib', 'annlib_adaptbx', 'boost_adaptbx', 'cbflib_adaptbx', 'ccp4io', 'ccp4io_adaptbx', 'cctbx', 'cma_es', 'crys3d', 'dxtbx', 'fable', 'gltbx', 'iotbx', 'libtbx', 'mmtbx', 'omptbx', 'rstbx', 'scitbx', 'serialtbx', 'smtbx', 'spotfinder', 'tbxx', 'wxtbx'}, 'full_testing': False, 'include_path': relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="include"), 'installed': False, 'installed_modules': [], 'installed_order': [], 'lib_path': relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="lib"), 'missing_for_build': set(), 'missing_for_use': set(), 'missing_optional': {'king', 'probe', 'cbflib', 'reduce', 'docutils'}, 'module_dict': {'annlib': , 'boost': , 'cbflib': , 'ccp4io': , 'cctbx': , 'chiltbx': , 'cma_es': , 'crys3d': , 'dxtbx': , 'fable': , 'gltbx': , 'iotbx': , 'libtbx': , 'mmtbx': , 'omptbx': , 'rstbx': , 'scitbx': , 'serialtbx': , 'smtbx': , 'spotfinder': , 'tbxx': , 'ucif': , 'wxtbx': }, 'module_dist_paths': {'annlib': 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'ccp4io_adaptbx': relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="../../../ccp4io_adaptbx"), 'cctbx': relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="../../../cctbx"), 'chiltbx': relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="../../../chiltbx"), 'cma_es': relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="../../../cma_es"), 'crys3d': relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="../../../crys3d"), 'dxtbx': relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="../../../dxtbx"), 'fable': relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="../../../fable"), 'gltbx': relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="../../../gltbx"), 'iotbx': relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="../../../iotbx"), 'libtbx': relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="../../../libtbx"), 'mmtbx': relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="../../../mmtbx"), 'omptbx': relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="../../../omptbx"), 'rstbx': relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="../../../rstbx"), 'scitbx': relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="../../../scitbx"), 'serialtbx': relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="../../../serialtbx"), 'smtbx': relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="../../../smtbx"), 'spotfinder': relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="../../../spotfinder"), 'tbxx': relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="../../../tbxx"), 'ucif': relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="../../../ucif"), 'wxtbx': relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="../../../wxtbx")}, 'module_list': [, , , , , , , , , , , , , , , , , , , , , , ], 'no_bin_python': False, 'path_utility': relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="../../../libtbx/command_line/path_utility.py"), 'python_exe': relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="/usr/bin/python3.14"), 'python_version_major_minor': (3, 14), 'pythonpath': [relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="../../.."), relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="../../../dxtbx/src"), relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="../../../boost_adaptbx"), relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="lib"), relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="/usr/lib/python3.14/dist-packages"), relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="/usr/lib/python3/dist-packages"), relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.14", relocatable="/usr/local/lib/python3.14/dist-packages")], 'relocatable': True, 'repository_paths': 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relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/assert_not_show_diff.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.start_binary_bundle"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/start_binary_bundle.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.find_under_build"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/find_under_build.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.start_process"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/start_process.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.create_mac_app"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/create_mac_app.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.import_all_python"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/import_all_python.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.show_number_of_processors"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_number_of_processors.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.pdflatex"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/pdflatex.sh"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.remote_processing"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/remote_processing.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.show_repository_paths"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_repository_paths.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.show_numeric_version"): relocatable_path(anchor="/usr", 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relocatable_path(anchor="/usr", relocatable="bin/libtbx.find_unused_imports"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/find_unused_imports.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.create_windows_exe"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/create_windows_exe.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.env_run"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/env_run.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.show_python_dependencies"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_python_dependencies.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.nequal"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/nequal.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.show_commands"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_commands.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.show_build_options"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_build_options.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.show_all_on_path"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_all_on_path.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.analyse_code_comments"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/analyse_code_comments.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.find_pdb_mmcif_problems"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/find_pdb_mmcif_problems.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.install"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/install.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.show_pythonpath"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_pythonpath.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.find_old_style_classes"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/find_old_style_classes.py"), relocatable_path(anchor="/usr", relocatable="bin/sphinx.build"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/sphinx_build.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.show_python_sys_executable"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_python_sys_executable.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.epydoc_run"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/epydoc_run.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.show_numpy_version"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_numpy_version.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.find_unused_imports_crude"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/find_unused_imports_crude.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.run_pickled_function"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/run_pickled_function.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.scons"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/scons.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.show_tests"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_tests.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.show_bin_path"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_bin_path.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.raise_exception_for_testing"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/raise_exception_for_testing.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.unpack_in_sources"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/unpack_in_sources.csh"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.remove_tree"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/remove_tree.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.py_compile_all"): relocatable_path(anchor="/usr", 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relocatable="lib/python3/dist-packages/libtbx/command_line/show_dist_paths.py"), relocatable_path(anchor="/usr", relocatable="bin/annlib.show_dist_paths"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_dist_paths.py"), relocatable_path(anchor="/usr", relocatable="bin/cbflib.show_dist_paths"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_dist_paths.py"), relocatable_path(anchor="/usr", relocatable="bin/ccp4io.show_dist_paths"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_dist_paths.py"), relocatable_path(anchor="/usr", relocatable="bin/cctbx.show_dist_paths"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_dist_paths.py"), relocatable_path(anchor="/usr", relocatable="bin/crys3d.show_dist_paths"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_dist_paths.py"), relocatable_path(anchor="/usr", relocatable="bin/smtbx.show_dist_paths"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_dist_paths.py"), relocatable_path(anchor="/usr", relocatable="bin/iotbx.show_dist_paths"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_dist_paths.py"), relocatable_path(anchor="/usr", relocatable="bin/dxtbx.show_dist_paths"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_dist_paths.py"), relocatable_path(anchor="/usr", relocatable="bin/gltbx.show_dist_paths"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_dist_paths.py"), relocatable_path(anchor="/usr", relocatable="bin/mmtbx.show_dist_paths"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_dist_paths.py"), relocatable_path(anchor="/usr", relocatable="bin/spotfinder.show_dist_paths"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_dist_paths.py"), relocatable_path(anchor="/usr", relocatable="bin/rstbx.show_dist_paths"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_dist_paths.py"), relocatable_path(anchor="/usr", relocatable="bin/serialtbx.show_dist_paths"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_dist_paths.py"), relocatable_path(anchor="/usr", relocatable="bin/wxtbx.show_dist_paths"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_dist_paths.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.python"): relocatable_path(anchor="/usr", relocatable="bin/python3.14"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.exec"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/exec.sh")}, 'bin_path': relocatable_path(anchor="/usr", relocatable="bin"), 'boost_version': 109000, 'build_options': , 'build_path': absolute_path("/usr/lib/cctbx/python3.14"), 'command_line_redirections': {}, 'command_version_suffix': None, 'dispatcher_name': None, 'exe_path': relocatable_path(anchor="/usr", relocatable="bin"), 'explicitly_requested_modules': {'annlib', 'annlib_adaptbx', 'boost_adaptbx', 'cbflib_adaptbx', 'ccp4io', 'ccp4io_adaptbx', 'cctbx', 'cma_es', 'crys3d', 'dxtbx', 'fable', 'gltbx', 'iotbx', 'libtbx', 'mmtbx', 'omptbx', 'rstbx', 'scitbx', 'serialtbx', 'smtbx', 'spotfinder', 'tbxx', 'wxtbx'}, 'full_testing': False, 'include_path': relocatable_path(anchor="/usr", relocatable="include"), 'installed': True, 'installed_modules': [], 'installed_order': [], 'lib_path': relocatable_path(anchor="/usr", relocatable="lib"), 'missing_for_build': set(), 'missing_for_use': set(), 'missing_optional': {'king', 'probe', 'cbflib', 'reduce', 'docutils'}, 'module_dict': {'annlib': , 'boost': , 'cbflib': , 'ccp4io': , 'cctbx': , 'chiltbx': , 'cma_es': , 'crys3d': , 'dxtbx': , 'fable': , 'gltbx': , 'iotbx': , 'libtbx': , 'mmtbx': , 'omptbx': , 'rstbx': , 'scitbx': , 'serialtbx': , 'smtbx': , 'spotfinder': , 'tbxx': , 'ucif': , 'wxtbx': }, 'module_dist_paths': {'annlib': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/annlib"), 'annlib_adaptbx': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/annlib_adaptbx"), 'boost': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/boost"), 'boost_adaptbx': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/boost_adaptbx"), 'cbflib_adaptbx': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/cbflib_adaptbx"), 'ccp4io': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/ccp4io"), 'ccp4io_adaptbx': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/ccp4io_adaptbx"), 'cctbx': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/cctbx"), 'chiltbx': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/chiltbx"), 'cma_es': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/cma_es"), 'crys3d': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/crys3d"), 'dxtbx': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/dxtbx"), 'fable': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/fable"), 'gltbx': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/gltbx"), 'iotbx': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/iotbx"), 'libtbx': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx"), 'mmtbx': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx"), 'omptbx': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/omptbx"), 'rstbx': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/rstbx"), 'scitbx': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/scitbx"), 'serialtbx': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/serialtbx"), 'smtbx': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/smtbx"), 'spotfinder': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/spotfinder"), 'tbxx': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/tbxx"), 'ucif': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/ucif"), 'wxtbx': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/wxtbx")}, 'module_list': [, , , , , , , , , , , , , , , , , , , , , , ], 'no_bin_python': True, 'path_utility': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/path_utility.py"), 'python_exe': relocatable_path(anchor="/usr", relocatable="bin/python3.14"), 'python_version_major_minor': (3, 14), 'pythonpath': [], 'relocatable': True, 'repository_paths': [relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages")], 'scons_dist_path': relocatable_path(anchor="/usr", relocatable=".")} building file list ... done ./ boost_adaptbx/ boost_adaptbx/tests/ boost_adaptbx/tests/tst_optional_copy iotbx/ iotbx/pdb/ iotbx/pdb/hybrid_36_fem scitbx/ scitbx/array_family/ scitbx/array_family/tst_accessors scitbx/array_family/tst_af_1 scitbx/array_family/tst_af_2 scitbx/array_family/tst_af_3 scitbx/array_family/tst_af_4 scitbx/array_family/tst_af_5 scitbx/array_family/tst_mat3 scitbx/array_family/tst_optional_copy scitbx/array_family/tst_rectangular_full_packed scitbx/array_family/tst_ref_matrix_facet scitbx/array_family/tst_sym_mat3 scitbx/array_family/tst_unsigned_float_arithmetic scitbx/array_family/tst_vec3 scitbx/error/ scitbx/error/tst_error scitbx/lbfgs/ scitbx/lbfgs/tst_lbfgs scitbx/math/ scitbx/math/tests/ scitbx/math/tests/tst scitbx/matrix/ scitbx/matrix/tests/ scitbx/matrix/tests/tst_cholesky scitbx/matrix/tests/tst_givens scitbx/matrix/tests/tst_householder scitbx/matrix/tests/tst_svd scitbx/serialization/ scitbx/serialization/tst_base_256 smtbx/ smtbx/refinement/ smtbx/refinement/constraints/ smtbx/refinement/constraints/tests/ smtbx/refinement/constraints/tests/tst_geometrical_hydrogens smtbx/refinement/constraints/tests/tst_reparametrisation smtbx/refinement/constraints/tests/tst_special_position sent 15,659,148 bytes received 568 bytes 31,319,432.00 bytes/sec total size is 15,647,640 speedup is 1.00 building file list ... done ./ libann_adaptor.so -> libann_adaptor.so.0.0.1 libann_adaptor.so.0 -> libann_adaptor.so.0.0.1 libann_adaptor.so.0.0.1 libasymmetric_map.so -> libasymmetric_map.so.0.0.1 libasymmetric_map.so.0 -> libasymmetric_map.so.0.0.1 libasymmetric_map.so.0.0.1 libcbf-private.so -> libcbf-private.so.0.0.1 libcbf-private.so.0 -> libcbf-private.so.0.0.1 libcbf-private.so.0.0.1 libccp4io.so -> libccp4io.so.0.0.1 libccp4io.so.0 -> libccp4io.so.0.0.1 libccp4io.so.0.0.1 libcctbx.so -> libcctbx.so.0.0.1 libcctbx.so.0 -> libcctbx.so.0.0.1 libcctbx.so.0.0.1 libcctbx_sgtbx_asu.so -> libcctbx_sgtbx_asu.so.0.0.1 libcctbx_sgtbx_asu.so.0 -> libcctbx_sgtbx_asu.so.0.0.1 libcctbx_sgtbx_asu.so.0.0.1 libdxtbxspotfinder.so -> libdxtbxspotfinder.so.0.0.1 libdxtbxspotfinder.so.0 -> libdxtbxspotfinder.so.0.0.1 libdxtbxspotfinder.so.0.0.1 libiotbx_mtz.so -> libiotbx_mtz.so.0.0.1 libiotbx_mtz.so.0 -> libiotbx_mtz.so.0.0.1 libiotbx_mtz.so.0.0.1 libiotbx_pdb.so -> libiotbx_pdb.so.0.0.1 libiotbx_pdb.so.0 -> libiotbx_pdb.so.0.0.1 libiotbx_pdb.so.0.0.1 libiotbx_xplor.so -> libiotbx_xplor.so.0.0.1 libiotbx_xplor.so.0 -> libiotbx_xplor.so.0.0.1 libiotbx_xplor.so.0.0.1 libmmtbx_masks.so -> libmmtbx_masks.so.0.0.1 libmmtbx_masks.so.0 -> libmmtbx_masks.so.0.0.1 libmmtbx_masks.so.0.0.1 libmmtbx_tls.so -> libmmtbx_tls.so.0.0.1 libmmtbx_tls.so.0 -> libmmtbx_tls.so.0.0.1 libmmtbx_tls.so.0.0.1 libomptbx.so -> libomptbx.so.0.0.1 libomptbx.so.0 -> libomptbx.so.0.0.1 libomptbx.so.0.0.1 librstbx.so -> librstbx.so.0.0.1 librstbx.so.0 -> librstbx.so.0.0.1 librstbx.so.0.0.1 libscitbx_boost_python.so -> libscitbx_boost_python.so.0.0.1 libscitbx_boost_python.so.0 -> libscitbx_boost_python.so.0.0.1 libscitbx_boost_python.so.0.0.1 libscitbx_minpack.so -> libscitbx_minpack.so.0.0.1 libscitbx_minpack.so.0 -> libscitbx_minpack.so.0.0.1 libscitbx_minpack.so.0.0.1 libscitbx_slatec.so -> libscitbx_slatec.so.0.0.1 libscitbx_slatec.so.0 -> libscitbx_slatec.so.0.0.1 libscitbx_slatec.so.0.0.1 libsmtbx_refinement_constraints.so -> libsmtbx_refinement_constraints.so.0.0.1 libsmtbx_refinement_constraints.so.0 -> libsmtbx_refinement_constraints.so.0.0.1 libsmtbx_refinement_constraints.so.0.0.1 libspotfinder.so -> libspotfinder.so.0.0.1 libspotfinder.so.0 -> libspotfinder.so.0.0.1 libspotfinder.so.0.0.1 sent 55,433,865 bytes received 494 bytes 110,868,718.00 bytes/sec total size is 55,417,394 speedup is 1.00 building file list ... done annlib_adaptbx/ annlib_adaptbx/ann_adaptor.h sent 2,232 bytes received 38 bytes 4,540.00 bytes/sec total size is 2,068 speedup is 0.91 building file list ... done boost_adaptbx/ boost_adaptbx/boost_range_python.hpp boost_adaptbx/convertible.h boost_adaptbx/exporting.hpp boost_adaptbx/floating_point_exceptions.h boost_adaptbx/hash.h boost_adaptbx/iterator_range.h boost_adaptbx/optional_conversions.h boost_adaptbx/precompiled.h boost_adaptbx/python_streambuf.h boost_adaptbx/std_pair_conversion.h boost_adaptbx/std_pair_fwd.h boost_adaptbx/swig_arg.hpp boost_adaptbx/tuple_conversion.h boost_adaptbx/graph/ boost_adaptbx/graph/graph_export_adaptor.hpp boost_adaptbx/graph/graph_type.hpp boost_adaptbx/graph/maximum_clique_greedy.hpp boost_adaptbx/graph/maximum_clique_rascal.hpp boost_adaptbx/graph/vertex_map.hpp boost_adaptbx/tests/ boost_adaptbx/tests/tst_optional_copy.h sent 73,904 bytes received 386 bytes 148,580.00 bytes/sec total size is 72,301 speedup is 0.97 building file list ... done cbflib_adaptbx/ cbflib_adaptbx/detectors/ cbflib_adaptbx/detectors/basic.h cbflib_adaptbx/detectors/buffer_based_service.h cbflib_adaptbx/detectors/cbf_adaptor.h cbflib_adaptbx/detectors/cbf_byte_offset_optimized.h cbflib_adaptbx/detectors/mar_adaptor.h cbflib_adaptbx/detectors/boost_python/ cbflib_adaptbx/detectors/boost_python/cbf_binary_adaptor.h cbflib_adaptbx/detectors/boost_python/general_cbf_write.h sent 22,295 bytes received 158 bytes 44,906.00 bytes/sec total size is 21,627 speedup is 0.96 building file list ... done ccp4io_adaptbx/ ccp4io_adaptbx/ccp4_ccplib_fem.hpp ccp4io_adaptbx/ccp4_diskio_fem.hpp ccp4io_adaptbx/ccp4_fftlib_fem.hpp ccp4io_adaptbx/ccp4_library_fem.hpp ccp4io_adaptbx/ccp4_maplib_fem.hpp ccp4io_adaptbx/ccp4_mtzlib_fem.hpp ccp4io_adaptbx/ccp4_other_fem.hpp ccp4io_adaptbx/ccp4_parser_f.h ccp4io_adaptbx/ccp4_parser_fem.hpp ccp4io_adaptbx/ccp4_symlib_fem.hpp ccp4io_adaptbx/cmaplib_f.h ccp4io_adaptbx/cmtzlib_f.h ccp4io_adaptbx/csymlib_f.h ccp4io_adaptbx/library_f.h ccp4io_adaptbx/printf_wrappers.h ccp4io_adaptbx/dev/ ccp4io_adaptbx/dev/fftlib.hpp sent 87,980 bytes received 326 bytes 176,612.00 bytes/sec total size is 86,686 speedup is 0.98 building file list ... done cctbx/ cctbx/adptbx.h cctbx/anharmonic.h cctbx/coordinates.h cctbx/crystal_orientation.h cctbx/cumulative_intensity_distribution.h cctbx/error.h cctbx/french_wilson.h cctbx/hendrickson_lattman.h cctbx/import_scitbx_af.h cctbx/miller.h cctbx/restraints.h cctbx/tagged_value.h cctbx/uctbx.h cctbx/adp_restraints/ cctbx/adp_restraints/adp_restraints.h cctbx/adp_restraints/adp_similarity.h cctbx/adp_restraints/aniso_restraints.h cctbx/adp_restraints/fixed_u_eq_adp.h cctbx/adp_restraints/isotropic_adp.h cctbx/adp_restraints/rigid_bond.h cctbx/adp_restraints/rigu.h cctbx/adptbx/ cctbx/adptbx/hirshfeld.h cctbx/covariance/ cctbx/covariance/covariance.h cctbx/crystal/ cctbx/crystal/asu_clusters.h cctbx/crystal/close_packing.h cctbx/crystal/coordination_sequences.h cctbx/crystal/direct_space_asu.h cctbx/crystal/incremental_pairs.h cctbx/crystal/namespace.h cctbx/crystal/neighbors_fast.h cctbx/crystal/neighbors_simple.h cctbx/crystal/pair_tables.h cctbx/crystal/site_cluster_analysis.h cctbx/crystal/symmetry.h cctbx/crystal/workarounds_bpl.h cctbx/dmtbx/ cctbx/dmtbx/triplet_generator.h cctbx/dmtbx/triplet_phase_relation.h cctbx/eltbx/ cctbx/eltbx/attenuation_coefficient.h cctbx/eltbx/basic.h cctbx/eltbx/chemical_elements.h cctbx/eltbx/covalent_radii.h cctbx/eltbx/electron_scattering.h cctbx/eltbx/fp_fdp.h cctbx/eltbx/henke.h cctbx/eltbx/icsd_radii.h cctbx/eltbx/neutron.h cctbx/eltbx/sasaki.h cctbx/eltbx/tiny_pse.h cctbx/eltbx/wavelengths.h cctbx/eltbx/xray_scattering.h cctbx/eltbx/xray_scattering/ cctbx/eltbx/xray_scattering/form_factor.h cctbx/eltbx/xray_scattering/gaussian.h cctbx/eltbx/xray_scattering/n_gaussian.h cctbx/eltbx/xray_scattering/n_gaussian_raw.h cctbx/examples/ cctbx/examples/merging/ cctbx/examples/merging/postrefine_base.h cctbx/examples/merging/xscale_prototype_core.h cctbx/geometry/ cctbx/geometry/geometry.h cctbx/geometry_restraints/ cctbx/geometry_restraints/angle.h cctbx/geometry_restraints/asu_cache.h cctbx/geometry_restraints/bond.h cctbx/geometry_restraints/bond_misc.h cctbx/geometry_restraints/bond_similarity.h cctbx/geometry_restraints/bond_sorted.h cctbx/geometry_restraints/chirality.h cctbx/geometry_restraints/dihedral.h cctbx/geometry_restraints/motif.h cctbx/geometry_restraints/namespace.h cctbx/geometry_restraints/nonbonded.h cctbx/geometry_restraints/nonbonded_sorted.h cctbx/geometry_restraints/parallelity.h cctbx/geometry_restraints/planarity.h cctbx/geometry_restraints/proxy_select.h cctbx/geometry_restraints/shared_wrapper_pickle.hpp cctbx/geometry_restraints/sorted_asu_proxies.h cctbx/geometry_restraints/utils.h cctbx/maptbx/ cctbx/maptbx/asymmetric_map.h cctbx/maptbx/average_densities.h cctbx/maptbx/connectivity.h cctbx/maptbx/coordinate_transformers.h cctbx/maptbx/copy.h cctbx/maptbx/fft.h cctbx/maptbx/fsc.h cctbx/maptbx/ft_analytical_1d_point_scatterer_at_origin.h cctbx/maptbx/grid_indices_around_sites.h cctbx/maptbx/grid_tags.h cctbx/maptbx/gridding.h cctbx/maptbx/histogram.h cctbx/maptbx/interpolation.h cctbx/maptbx/loft.h cctbx/maptbx/map_accumulator.h cctbx/maptbx/marked_grid_points.h cctbx/maptbx/mask.h cctbx/maptbx/mask_utils.h cctbx/maptbx/namespace.h cctbx/maptbx/peak_search.h cctbx/maptbx/resolution.h cctbx/maptbx/skeletons.h cctbx/maptbx/sphericity.h cctbx/maptbx/standard_deviations_around_sites.hpp cctbx/maptbx/statistics.h cctbx/maptbx/structure_factors.h cctbx/maptbx/target_and_gradients.h cctbx/maptbx/utils.h cctbx/maptbx/accessors/ cctbx/maptbx/accessors/c_grid_p1.h cctbx/maptbx/accessors/c_grid_padded_p1.h cctbx/maptbx/bcr/ cctbx/maptbx/bcr/bcr.h cctbx/maptbx/bcr/vrm.h cctbx/masks/ cctbx/masks/around_atoms.h cctbx/masks/flood_fill.h cctbx/math/ cctbx/math/array_utils.h cctbx/math/cos_sin_table.h cctbx/math/loop_n_from_m.h cctbx/math/mod.h cctbx/miller/ cctbx/miller/amplitude_normalisation.h cctbx/miller/asu.h cctbx/miller/bins.h cctbx/miller/change_basis.h cctbx/miller/expand_to_p1.h cctbx/miller/f_calc_map.h cctbx/miller/index_generator.h cctbx/miller/index_span.h cctbx/miller/lookup_utils.h cctbx/miller/match.h cctbx/miller/match_bijvoet_mates.h cctbx/miller/match_indices.h cctbx/miller/match_multi_indices.h cctbx/miller/math.h cctbx/miller/merge_equivalents.h cctbx/miller/phase_integrator.h cctbx/miller/phase_transfer.h cctbx/miller/randomize_amplitude_and_phase.h cctbx/miller/slices.h cctbx/miller/sym_equiv.h cctbx/miller/union_of_indices.h cctbx/multipolar/ cctbx/multipolar/aspherical.h cctbx/sgtbx/ cctbx/sgtbx/basic.h cctbx/sgtbx/brick.h cctbx/sgtbx/change_of_basis_op.h cctbx/sgtbx/find_affine.h cctbx/sgtbx/group_codes.h cctbx/sgtbx/lattice_symmetry.h cctbx/sgtbx/lattice_tr.h cctbx/sgtbx/miller_ops.h cctbx/sgtbx/operator_from_axis_direction.h cctbx/sgtbx/parse_string.h cctbx/sgtbx/phase_info.h cctbx/sgtbx/reciprocal_space_asu.h cctbx/sgtbx/reciprocal_space_reference_asu.h cctbx/sgtbx/reference_settings.h cctbx/sgtbx/rot_mx.h cctbx/sgtbx/rot_mx_hash.h cctbx/sgtbx/rot_mx_info.h cctbx/sgtbx/rotation_matrices.h cctbx/sgtbx/row_echelon_solve.h cctbx/sgtbx/rt_mx.h cctbx/sgtbx/rt_mx_hash.h cctbx/sgtbx/search_symmetry.h cctbx/sgtbx/select_generators.h cctbx/sgtbx/seminvariant.h cctbx/sgtbx/site_constraints.h cctbx/sgtbx/site_symmetry.h cctbx/sgtbx/site_symmetry_table.h cctbx/sgtbx/smith_normal_form.h cctbx/sgtbx/space_group.h cctbx/sgtbx/space_group_hash.h cctbx/sgtbx/space_group_type.h cctbx/sgtbx/sym_equiv_sites.h cctbx/sgtbx/symbols.h cctbx/sgtbx/sys_abs_equiv.h cctbx/sgtbx/tensor_rank_2.h cctbx/sgtbx/tensors.h cctbx/sgtbx/tr_group.h cctbx/sgtbx/tr_group_hash.h cctbx/sgtbx/tr_vec.h cctbx/sgtbx/tr_vec_hash.h cctbx/sgtbx/utils.h cctbx/sgtbx/wyckoff.h cctbx/sgtbx/direct_space_asu/ cctbx/sgtbx/direct_space_asu/proto/ cctbx/sgtbx/direct_space_asu/proto/asymmetric_unit.h cctbx/sgtbx/direct_space_asu/proto/cut.h cctbx/sgtbx/direct_space_asu/proto/direct_space_asu.h cctbx/sgtbx/direct_space_asu/proto/expressions.h cctbx/sgtbx/direct_space_asu/proto/facet_collection.h cctbx/sgtbx/direct_space_asu/proto/reference_table.h cctbx/sgtbx/direct_space_asu/proto/shortcuts.h cctbx/sgtbx/direct_space_asu/proto/small_vec_math.h cctbx/symmetry_search/ cctbx/symmetry_search/translation_refinement.h cctbx/translation_search/ cctbx/translation_search/fast_nv1995.h cctbx/translation_search/fast_terms.h cctbx/translation_search/namespace.h cctbx/translation_search/symmetry_flags.h cctbx/translation_search/fast_nv1995/ cctbx/translation_search/fast_nv1995/combinations.h cctbx/translation_search/fast_nv1995/intermediates.h cctbx/translation_search/fast_nv1995/summations.h cctbx/uctbx/ cctbx/uctbx/fast_minimum_reduction.h cctbx/uctbx/niggli_reduction.h cctbx/uctbx/determine_unit_cell/ cctbx/uctbx/determine_unit_cell/NCDist.h cctbx/xray/ cctbx/xray/conversions.h cctbx/xray/curvatures_simple.h cctbx/xray/each_hkl_gradients_direct.h cctbx/xray/extinction.h cctbx/xray/f_model.h cctbx/xray/fast_gradients.h cctbx/xray/gradient_flags.h cctbx/xray/gradients_direct.h cctbx/xray/grouped_data.h cctbx/xray/hr_ht_cache.h cctbx/xray/minimization.h cctbx/xray/observations.h cctbx/xray/packing_order.h cctbx/xray/parameter_map.h cctbx/xray/sampled_model_density.h cctbx/xray/sampling_base.h cctbx/xray/sampling_loop.h cctbx/xray/scatterer.h cctbx/xray/scatterer_flags.h cctbx/xray/scatterer_utils.h cctbx/xray/scattering_type_registry.h cctbx/xray/sigmaa.h cctbx/xray/structure_factors_direct.h cctbx/xray/structure_factors_simple.h cctbx/xray/targets.h cctbx/xray/twin_component.h cctbx/xray/twin_targets.h cctbx/xray/targets/ cctbx/xray/targets/common_results.h cctbx/xray/targets/correlation.h cctbx/xray/targets/least_squares.h cctbx/xray/targets/mlf.h cctbx/xray/targets/mlhl.h cctbx/xray/targets/mli.h cctbx/xray/targets/shelxl_wght_ls.hpp sent 1,947,243 bytes received 4,458 bytes 3,903,402.00 bytes/sec total size is 1,929,959 speedup is 0.99 building file list ... done cma_es/ cma_es/cma/ cma_es/cma/cmaes.h cma_es/cma/cmaes_interface.h sent 6,886 bytes received 60 bytes 13,892.00 bytes/sec total size is 6,671 speedup is 0.96 building file list ... done sent 199 bytes received 12 bytes 422.00 bytes/sec total size is 0 speedup is 0.00 building file list ... done dxtbx/ dxtbx/error.h dxtbx/imageset.h dxtbx/array_family/ dxtbx/array_family/flex_table.h dxtbx/array_family/flex_table_suite.h dxtbx/array_family/ref_pickle_double_buffered.h dxtbx/boost_python/ dxtbx/boost_python/compression.h dxtbx/format/ dxtbx/format/image.h dxtbx/format/boost_python/ dxtbx/format/boost_python/cbf_read_buffer.h dxtbx/masking/ dxtbx/masking/goniometer_shadow_masking.h dxtbx/masking/masking.h dxtbx/model/ dxtbx/model/beam.h dxtbx/model/crystal.h dxtbx/model/detector.h dxtbx/model/experiment.h dxtbx/model/experiment_list.h dxtbx/model/goniometer.h dxtbx/model/history.h dxtbx/model/kappa_goniometer.h dxtbx/model/model_helpers.h dxtbx/model/multi_axis_goniometer.h dxtbx/model/panel.h dxtbx/model/panel_data.h dxtbx/model/parallax_correction.h dxtbx/model/pixel_to_millimeter.h dxtbx/model/ray_intersection.h dxtbx/model/scan.h dxtbx/model/scan_helpers.h dxtbx/model/spectrum.h dxtbx/model/virtual_panel.h dxtbx/model/boost_python/ dxtbx/model/boost_python/pickle_suite.h dxtbx/model/boost_python/to_from_dict.h sent 399,900 bytes received 629 bytes 801,058.00 bytes/sec total size is 397,404 speedup is 0.99 building file list ... done ./ fem.hpp noexcept_false.hpp fem/ fem/arr.hpp fem/arr_and_str_indices.hpp fem/arr_ref.hpp fem/arr_size.hpp fem/close_chain.hpp fem/common.hpp fem/data.hpp fem/data_of_type.hpp fem/data_type_star.hpp fem/dimension.hpp fem/do.hpp fem/error_utils.hpp fem/file_positioning_chain.hpp fem/format.hpp fem/inquire_chain.hpp fem/intrinsics.hpp fem/intrinsics_extra.hpp fem/io.hpp fem/io_exceptions.hpp fem/main.hpp fem/major_types.hpp fem/open_chain.hpp fem/read.hpp fem/size_t.hpp fem/star.hpp fem/stop.hpp fem/str.hpp fem/str_arr_ref.hpp fem/str_ref.hpp fem/variant.hpp fem/write.hpp fem/zero.hpp fem/utils/ fem/utils/char.hpp fem/utils/double_to_string.hpp fem/utils/equivalence.hpp fem/utils/int_types.hpp fem/utils/misc.hpp fem/utils/path.hpp fem/utils/random.hpp fem/utils/real_as_string.hpp fem/utils/simple_streams.hpp fem/utils/string.hpp fem/utils/string_to_double.hpp fem/utils/string_to_double_fmt.hpp fem/utils/token.hpp sent 204,804 bytes received 918 bytes 411,444.00 bytes/sec total size is 201,540 speedup is 0.98 building file list ... done gltbx/ gltbx/error.h gltbx/error_utils.h gltbx/fonts_ucs.h gltbx/glext.h gltbx/include_opengl.h gltbx/pointer_args_bpl.h gltbx/quadrics.h gltbx/special_wrapper_support.h gltbx/util.h sent 598,796 bytes received 190 bytes 1,197,972.00 bytes/sec total size is 597,954 speedup is 1.00 building file list ... done iotbx/ iotbx/error.h iotbx/detectors/ iotbx/detectors/bruker.h iotbx/detectors/display.h iotbx/detectors/image_divider.h iotbx/detectors/scanbox.h iotbx/detectors/context/ iotbx/detectors/context/spot_xy_convention.h iotbx/dsn6/ iotbx/dsn6/dsn6.hpp iotbx/mtz/ iotbx/mtz/batch.h iotbx/mtz/column.h iotbx/mtz/crystal.h iotbx/mtz/dataset.h iotbx/mtz/object.h iotbx/pdb/ iotbx/pdb/common_residue_names.h iotbx/pdb/hierarchy.h iotbx/pdb/hierarchy_atoms.h iotbx/pdb/hierarchy_bpl.h iotbx/pdb/hybrid_36_c.h iotbx/pdb/hybrid_36_cpp.h iotbx/pdb/input.h iotbx/pdb/modified_aa_names.h iotbx/pdb/modified_rna_dna_names.h iotbx/pdb/namespace.h iotbx/pdb/rna_dna_atom_names.h iotbx/pdb/small_str.h iotbx/pdb/utils.h iotbx/pdb/write_utils.h iotbx/pdb/write_utils_bpl.h iotbx/pdb/xray_structure.h iotbx/shelx/ iotbx/shelx/hklf.h iotbx/xplor/ iotbx/xplor/map_reader.h iotbx/xplor/map_writer.h sent 273,007 bytes received 629 bytes 547,272.00 bytes/sec total size is 270,145 speedup is 0.99 building file list ... done sent 1,284 bytes received 12 bytes 2,592.00 bytes/sec total size is 0 speedup is 0.00 building file list ... done mmtbx/ mmtbx/error.h mmtbx/import_scitbx_af.h mmtbx/alignment/ mmtbx/alignment/align.h mmtbx/alignment/alignment.h mmtbx/alignment/tables.h mmtbx/building/ mmtbx/building/loop_closure/ mmtbx/building/loop_closure/ccd.h mmtbx/bulk_solvent/ mmtbx/bulk_solvent/bulk_solvent.h mmtbx/bulk_solvent/mosaic.h mmtbx/den/ mmtbx/den/den.h mmtbx/dynamics/ mmtbx/dynamics/dynamics.h mmtbx/f_model/ mmtbx/f_model/f_model.h mmtbx/geometry/ mmtbx/geometry/asa.hpp mmtbx/geometry/calculator.hpp mmtbx/geometry/clash.hpp mmtbx/geometry/containment.hpp mmtbx/geometry/flattening.hpp mmtbx/geometry/indexing.hpp mmtbx/geometry/overlap.hpp mmtbx/geometry/primitive.hpp mmtbx/geometry/sphere_surface_sampling.hpp mmtbx/geometry/boost_python/ mmtbx/geometry/boost_python/containment.hpp mmtbx/geometry/boost_python/indexing.hpp mmtbx/geometry_restraints/ mmtbx/geometry_restraints/ramachandran.h mmtbx/geometry_restraints/reference_coordinate.h mmtbx/hydrogens/ mmtbx/hydrogens/hydrogens.h mmtbx/masks/ mmtbx/masks/atom_mask.h mmtbx/masks/grid_symop.h mmtbx/masks/util.h mmtbx/max_lik/ mmtbx/max_lik/max_lik.h mmtbx/max_lik/solvent_distribution_nco_09may2005.h mmtbx/max_lik/solvent_distribution_nco_09may2005_short.h mmtbx/max_lik/solvent_distribution_nco_09may2005_short_uniform.h mmtbx/max_lik/solvent_distribution_nco_14mar2005.h mmtbx/max_lik/solvent_distribution_nco_14mar2005_mod.h mmtbx/max_lik/solvent_distribution_nco_14mar2005_short.h mmtbx/max_lik/wat_dist_r_0_1.h mmtbx/max_lik/wat_dist_r_2p0_2p5.h mmtbx/ncs/ mmtbx/ncs/cartesian_restraints.h mmtbx/ncs/tncs.h mmtbx/pair_interaction/ mmtbx/pair_interaction/interaction.h mmtbx/probe/ mmtbx/probe/Common.h mmtbx/probe/DotSpheres.h mmtbx/probe/Scoring.h mmtbx/probe/SpatialQuery.h mmtbx/reduce/ mmtbx/reduce/InteractionGraph.h mmtbx/reduce/Optimizers.h mmtbx/reduce/PositionReturn.h mmtbx/rotamer/ mmtbx/rotamer/fit.h mmtbx/rsr/ mmtbx/rsr/rsr.h mmtbx/scaling/ mmtbx/scaling/absolute_scaling.h mmtbx/scaling/outlier.h mmtbx/scaling/relative_scaling.h mmtbx/scaling/scaling.h mmtbx/scaling/twinning.h mmtbx/secondary_structure/ mmtbx/secondary_structure/dssp.hpp mmtbx/secondary_structure/identify.hpp mmtbx/tls/ mmtbx/tls/decompose.h mmtbx/tls/optimise_amplitudes.h mmtbx/tls/tls.h mmtbx/tls/utils.h mmtbx/utils/ mmtbx/utils/utils.h mmtbx/validation/ mmtbx/validation/ramachandran/ mmtbx/validation/ramachandran/rama8000_tables.h mmtbx/validation/ramachandran/rama_eval.h sent 2,052,733 bytes received 1,291 bytes 4,108,048.00 bytes/sec total size is 2,046,334 speedup is 1.00 building file list ... done omptbx/ omptbx/lock.h omptbx/omp_or_stubs.h omptbx/stubs.h sent 2,109 bytes received 76 bytes 4,370.00 bytes/sec total size is 1,850 speedup is 0.85 building file list ... done rstbx/ rstbx/backplane.h rstbx/import_scitbx_af.hpp rstbx/apps/ rstbx/apps/stills/ rstbx/apps/stills/simple_integration.h rstbx/bandpass/ rstbx/bandpass/parameters.h rstbx/bandpass/subpixel_joint_model.h rstbx/bpcx/ rstbx/bpcx/detector_model/ rstbx/bpcx/detector_model/sensor.h rstbx/diffraction/ rstbx/diffraction/ewald_sphere.h rstbx/diffraction/partial_spot_position_partial_H.h rstbx/diffraction/reflection_range.h rstbx/diffraction/fastbragg/ rstbx/diffraction/fastbragg/fastbragg.h rstbx/dps_core/ rstbx/dps_core/direction.h rstbx/dps_core/directional_fft.h rstbx/dps_core/dps_core.h rstbx/dps_core/spotclass.h rstbx/indexing_api/ rstbx/indexing_api/indexing_api.h rstbx/simage/ rstbx/simage/image_simple.hpp rstbx/simulation/ rstbx/simulation/sim_xfel1.h rstbx/symmetry/ rstbx/symmetry/constraints/ rstbx/symmetry/constraints/a_g_conversion.h sent 111,348 bytes received 400 bytes 223,496.00 bytes/sec total size is 109,476 speedup is 0.98 building file list ... done scitbx/ scitbx/auto_array.h scitbx/constants.h scitbx/cubicle_neighbors.hpp scitbx/cubicles.h scitbx/error.h scitbx/error_utils.h scitbx/histogram.h scitbx/indexed_value.h scitbx/iso_surface.h scitbx/lbfgs.h scitbx/lbfgsb.h scitbx/mat2.h scitbx/mat3.h scitbx/numerical.h scitbx/r3_utils.hpp scitbx/random.h scitbx/random_legacy_boost_1_63.h scitbx/rational.h scitbx/rotr3.h scitbx/sym_mat2.h scitbx/sym_mat3.h scitbx/type_holder.h scitbx/vec2.h scitbx/vec3.h scitbx/weighted_histogram.h scitbx/array_family/ scitbx/array_family/array_adaptor.h scitbx/array_family/block_iterator.h scitbx/array_family/counts.h scitbx/array_family/error.h scitbx/array_family/flex_types.h scitbx/array_family/initialiser.h scitbx/array_family/linear_interpolation.h scitbx/array_family/loops.h scitbx/array_family/memory.h scitbx/array_family/misc_functions.h scitbx/array_family/owning_ref.h scitbx/array_family/range.h scitbx/array_family/ref.h scitbx/array_family/ref_matrix.h scitbx/array_family/ref_reductions.h scitbx/array_family/selections.h scitbx/array_family/shared.h scitbx/array_family/shared_plain.h scitbx/array_family/simple_io.h scitbx/array_family/simple_tiny_io.h scitbx/array_family/slice.h scitbx/array_family/small.h scitbx/array_family/small_plain.h scitbx/array_family/sort.h scitbx/array_family/tiny.h scitbx/array_family/tiny_mat_ref.h scitbx/array_family/tiny_plain.h scitbx/array_family/tiny_types.h scitbx/array_family/type_traits.h scitbx/array_family/versa.h scitbx/array_family/versa_matrix.h scitbx/array_family/versa_plain.h scitbx/array_family/accessors/ scitbx/array_family/accessors/c_grid.h scitbx/array_family/accessors/c_grid_padded.h scitbx/array_family/accessors/c_grid_padded_periodic.h scitbx/array_family/accessors/c_grid_periodic.h scitbx/array_family/accessors/c_index_1d_calculator.h scitbx/array_family/accessors/c_interval_grid.h scitbx/array_family/accessors/f_grid.h scitbx/array_family/accessors/flex_grid.h scitbx/array_family/accessors/mat_grid.h scitbx/array_family/accessors/packed_matrix.h scitbx/array_family/accessors/rectangular_full_packed.h scitbx/array_family/accessors/row_and_column.h scitbx/array_family/accessors/striding.h scitbx/array_family/accessors/traits.h scitbx/array_family/accessors/trivial.h scitbx/array_family/boost_python/ scitbx/array_family/boost_python/byte_str.h scitbx/array_family/boost_python/c_grid_flex_conversions.h scitbx/array_family/boost_python/flex_helpers.h scitbx/array_family/boost_python/flex_pickle_double_buffered.h scitbx/array_family/boost_python/flex_pickle_single_buffered.h scitbx/array_family/boost_python/flex_wrapper.h scitbx/array_family/boost_python/flex_wrapper_complex.h scitbx/array_family/boost_python/numpy_bridge.hpp scitbx/array_family/boost_python/owning_ref_conversions.h scitbx/array_family/boost_python/packed_to_flex_conversions.h scitbx/array_family/boost_python/passing_flex_by_reference.h scitbx/array_family/boost_python/range_wrappers.h scitbx/array_family/boost_python/ref_flex_conversions.h scitbx/array_family/boost_python/ref_from_array.h scitbx/array_family/boost_python/ref_pickle_double_buffered.h scitbx/array_family/boost_python/selections_wrapper.h scitbx/array_family/boost_python/shared_flat_conversions.h scitbx/array_family/boost_python/shared_flex_conversions.h scitbx/array_family/boost_python/shared_wrapper.h scitbx/array_family/boost_python/utils.h scitbx/array_family/detail/ scitbx/array_family/detail/auto_allocator.h scitbx/array_family/detail/generic_array_functors.h scitbx/array_family/detail/generic_array_operators.h scitbx/array_family/detail/misc.h scitbx/array_family/detail/push_back_etc.h scitbx/array_family/detail/reducing_boolean_mem_fun.h scitbx/array_family/detail/ref_helpers.h scitbx/array_family/detail/tiny_helpers.h scitbx/boost_python/ scitbx/boost_python/array_as_list.h scitbx/boost_python/container_conversions.h scitbx/boost_python/cstringio_utils.h scitbx/boost_python/is_polymorphic_workaround.h scitbx/boost_python/iterator_range.hpp scitbx/boost_python/iterator_wrappers.h scitbx/boost_python/pair_as_tuple.hpp scitbx/boost_python/sequence_as_array.h scitbx/boost_python/slice.h scitbx/boost_python/stl_map_as_dict.h scitbx/boost_python/utils.h scitbx/examples/ scitbx/examples/bevington/ scitbx/examples/bevington/prototype_core.h scitbx/fftpack/ scitbx/fftpack/complex_to_complex.h scitbx/fftpack/complex_to_complex_2d.h scitbx/fftpack/complex_to_complex_3d.h scitbx/fftpack/factorization.h scitbx/fftpack/gridding.h scitbx/fftpack/real_to_complex.h scitbx/fftpack/real_to_complex_3d.h scitbx/fftpack/detail/ scitbx/fftpack/detail/real_to_complex_backward.h scitbx/fftpack/detail/real_to_complex_forward.h scitbx/fftpack/detail/ref.h scitbx/glmtbx/ scitbx/glmtbx/family.h scitbx/glmtbx/glm.h scitbx/glmtbx/robust_glm.h scitbx/graphics_utils/ scitbx/graphics_utils/colors.h scitbx/lbfgs/ scitbx/lbfgs/drop_convergence_test.h scitbx/lbfgs/raw.h scitbx/lbfgs/raw_reference.h scitbx/lbfgsb/ scitbx/lbfgsb/fortran_interface.h scitbx/lbfgsb/raw.h scitbx/line_search/ scitbx/line_search/more_thuente_1994.h scitbx/line_search/more_thuente_1994_raw.h scitbx/lstbx/ scitbx/lstbx/normal_equations.h scitbx/math/ scitbx/math/2d_zernike_moments.h scitbx/math/accumulators.h scitbx/math/angle_derivative.h scitbx/math/approx_equal.h scitbx/math/atanh.h scitbx/math/basic_statistics.h scitbx/math/bessel.h scitbx/math/cartesian_product_fixed_size.hpp scitbx/math/chebyshev.h scitbx/math/compile_time.h scitbx/math/continued_fraction.h scitbx/math/copysign.h scitbx/math/cubic_equation.h scitbx/math/dihedral.h scitbx/math/distance_difference.h scitbx/math/distributions.h scitbx/math/eigensystem.h scitbx/math/erf.h scitbx/math/euler_angles.h scitbx/math/fast_approx_math.h scitbx/math/floating_point_epsilon.h scitbx/math/g_function.h scitbx/math/gamma.h scitbx/math/gaussian_fit_1d_analytical.h scitbx/math/gcd.h scitbx/math/golay.h scitbx/math/halton.h scitbx/math/icosahedron.h scitbx/math/imaginary.h scitbx/math/inertia_tensor.h scitbx/math/interpolation.h scitbx/math/jacks_expf.h scitbx/math/lambertw.h scitbx/math/least_squares_plane.h scitbx/math/linear_correlation.h scitbx/math/linear_interpolation.h scitbx/math/linear_regression.h scitbx/math/mean_and_variance.h scitbx/math/minimum_covering_sphere.h scitbx/math/modulo.h scitbx/math/namespace.h scitbx/math/numeric_limits.h scitbx/math/orthonormal_basis.h scitbx/math/parabolic_cylinder_d.h scitbx/math/phase_error.h scitbx/math/polygon_intersection.h scitbx/math/principal_axes_of_inertia.h scitbx/math/quadrature.h scitbx/math/r3_rotation.h scitbx/math/resample.h scitbx/math/rotate_around_axis.h scitbx/math/rotation.h scitbx/math/superpose.h scitbx/math/tetrahedron.h scitbx/math/traits.h scitbx/math/unimodular_generator.h scitbx/math/utils.h scitbx/math/weighted_covariance.h scitbx/math/zernike.h scitbx/math/zernike_moments.h scitbx/math/erf/ scitbx/math/erf/constants.h scitbx/math/erf/engine.h scitbx/math/gaussian/ scitbx/math/gaussian/fit.h scitbx/math/gaussian/namespace.h scitbx/math/gaussian/sum.h scitbx/math/gaussian/term.h scitbx/matrix/ scitbx/matrix/as_xyz.h scitbx/matrix/cholesky.h scitbx/matrix/delta_tensors.h scitbx/matrix/diagonal.h scitbx/matrix/eigensystem.h scitbx/matrix/givens.h scitbx/matrix/householder.h scitbx/matrix/inversion.h scitbx/matrix/lu_decomposition.h scitbx/matrix/matrix_vector_operations.h scitbx/matrix/move.h scitbx/matrix/multiply.h scitbx/matrix/norms.h scitbx/matrix/outer_product.h scitbx/matrix/packed.h scitbx/matrix/row_echelon.h scitbx/matrix/row_echelon_full_pivoting.h scitbx/matrix/row_echelon_full_pivoting_impl.h scitbx/matrix/row_echelon_full_pivoting_small.h scitbx/matrix/special_matrices.h scitbx/matrix/svd.h scitbx/matrix/symmetric_rank_1_update.h scitbx/matrix/tensor_rank_2.h scitbx/matrix/tensors.h scitbx/matrix/tests.h scitbx/matrix/transpose_multiply.h scitbx/matrix/triangular_systems.h scitbx/matrix/vector_operations.h scitbx/matrix/tests/ scitbx/matrix/tests/utils.h scitbx/minpack/ scitbx/minpack/levenberg_marquardt.h scitbx/minpack/raw.h scitbx/misc/ scitbx/misc/file_utils.h scitbx/misc/positive_getitem_index.h scitbx/misc/split_lines.h scitbx/random/ scitbx/random/mersenne_twister.h scitbx/random/variate_generator.h scitbx/random/boost_python/ scitbx/random/boost_python/random.h scitbx/rigid_body/ scitbx/rigid_body/array_packing.h scitbx/rigid_body/body_lib.h scitbx/rigid_body/body_t.h scitbx/rigid_body/featherstone.h scitbx/rigid_body/joint_lib.h scitbx/rigid_body/joint_t.h scitbx/rigid_body/matrix_helpers.h scitbx/rigid_body/namespace.h scitbx/rigid_body/spatial_lib.h scitbx/rigid_body/tardy.h scitbx/serialization/ scitbx/serialization/base_256.h scitbx/serialization/double_buffered.h scitbx/serialization/single_buffered.h scitbx/slatec/ scitbx/slatec/lib_c.h scitbx/slatec/lib_cpp.h scitbx/sparse/ scitbx/sparse/approx_equal.h scitbx/sparse/dfs.h scitbx/sparse/io.h scitbx/sparse/lu_factorization.h scitbx/sparse/matrix.h scitbx/sparse/operators.h scitbx/sparse/random.h scitbx/sparse/triangular.h scitbx/sparse/util.h scitbx/sparse/vector.h scitbx/sparse/boost_python/ scitbx/sparse/boost_python/vector.h scitbx/stl/ scitbx/stl/map_as_python_dict.h scitbx/stl/map_fwd.h scitbx/stl/map_wrapper.h scitbx/stl/set_wrapper.h scitbx/stl/vector_as_python_list.h scitbx/stl/vector_io.h scitbx/stl/vector_wrapper.h scitbx/suffixtree/ scitbx/suffixtree/builder.hpp scitbx/suffixtree/edge.hpp scitbx/suffixtree/exception.hpp scitbx/suffixtree/glyph.hpp scitbx/suffixtree/iterator.hpp scitbx/suffixtree/matching_statistics.hpp scitbx/suffixtree/tree.hpp scitbx/suffixtree/word.hpp scitbx/suffixtree/boost_python/ scitbx/suffixtree/boost_python/edge_exports.hpp scitbx/suffixtree/boost_python/iterator_wrapper.hpp scitbx/suffixtree/boost_python/object_extensions.hpp scitbx/suffixtree/boost_python/tree_exports.hpp scitbx/util/ scitbx/util/cpu_timer.h scitbx/wigner/ scitbx/wigner/wigner3j.h sent 1,906,379 bytes received 5,521 bytes 1,274,600.00 bytes/sec total size is 1,886,129 speedup is 0.99 building file list ... done sent 154 bytes received 12 bytes 332.00 bytes/sec total size is 0 speedup is 0.00 building file list ... done smtbx/ smtbx/error.h smtbx/import_cctbx.h smtbx/import_scitbx_af.h smtbx/ab_initio/ smtbx/ab_initio/density_modification.h smtbx/refinement/ smtbx/refinement/import_cctbx_xray.h smtbx/refinement/least_squares.h smtbx/refinement/weighting_schemes.h smtbx/refinement/constraints/ smtbx/refinement/constraints/affine.h smtbx/refinement/constraints/direction.h smtbx/refinement/constraints/geometrical_hydrogens.h smtbx/refinement/constraints/occupancy.h smtbx/refinement/constraints/proxy.h smtbx/refinement/constraints/reparametrisation.h smtbx/refinement/constraints/rigid.h smtbx/refinement/constraints/same_group.h smtbx/refinement/constraints/scaled_adp.h smtbx/refinement/constraints/scatterer_parameters.h smtbx/refinement/constraints/shared.h smtbx/refinement/constraints/special_position.h smtbx/refinement/constraints/symmetry_equivalent.h smtbx/refinement/constraints/u_eq_dependent_u_iso.h smtbx/refinement/constraints/u_iso_dependent_u_iso.h smtbx/refinement/restraints/ smtbx/refinement/restraints/origin_fixing.h smtbx/structure_factors/ smtbx/structure_factors/direct/ smtbx/structure_factors/direct/standard_xray.h smtbx/structure_factors/direct/table_based.h sent 182,161 bytes received 512 bytes 365,346.00 bytes/sec total size is 179,686 speedup is 0.98 building file list ... done spotfinder/ spotfinder/applications/ spotfinder/applications/find_active_area.h spotfinder/core_toolbox/ spotfinder/core_toolbox/distl.h spotfinder/core_toolbox/hough.h spotfinder/core_toolbox/libdistl.h spotfinder/core_toolbox/spot_shapes.h spotfinder/core_toolbox/spot_types.h spotfinder/core_toolbox/spotfilter.h spotfinder/core_toolbox/boost_python/ spotfinder/core_toolbox/boost_python/singlemask.h spotfinder/dxtbx_toolbox/ spotfinder/dxtbx_toolbox/distl.h spotfinder/dxtbx_toolbox/libdistl.h sent 42,955 bytes received 221 bytes 86,352.00 bytes/sec total size is 41,966 speedup is 0.97 building file list ... done tbxx/ tbxx/alignment.h tbxx/error_utils.hpp tbxx/libc_backtrace.hpp tbxx/optional_copy.hpp tbxx/pretty_type_name.hpp tbxx/time_accu.hpp sent 12,025 bytes received 133 bytes 24,316.00 bytes/sec total size is 11,532 speedup is 0.95 building file list ... done sent 150 bytes received 12 bytes 324.00 bytes/sec total size is 0 speedup is 0.00 building file list ... done ./ boost_adaptbx/ boost_adaptbx/type_id_eq.h cctbx/boost_python/ cctbx/boost_python/flex_fwd.h scitbx/ scitbx/lbfgs_fem.hpp scitbx/array_family/ scitbx/array_family/operator_traits_builtin.h scitbx/array_family/ref_algebra.h scitbx/array_family/ref_apply.h scitbx/array_family/shared_algebra.h scitbx/array_family/shared_apply.h scitbx/array_family/shared_plain_apply.h scitbx/array_family/shared_reductions.h scitbx/array_family/small_algebra.h scitbx/array_family/small_apply.h scitbx/array_family/small_plain_apply.h scitbx/array_family/small_reductions.h scitbx/array_family/tiny_algebra.h scitbx/array_family/tiny_apply.h scitbx/array_family/tiny_plain_apply.h scitbx/array_family/tiny_reductions.h scitbx/array_family/versa_algebra.h scitbx/array_family/versa_apply.h scitbx/array_family/versa_plain_apply.h scitbx/array_family/versa_reductions.h scitbx/array_family/boost_python/ scitbx/array_family/boost_python/flex_fwd.h scitbx/array_family/detail/ scitbx/array_family/detail/operator_functors.h scitbx/array_family/detail/std_imports.h smtbx/boost_python/ smtbx/boost_python/flex_fwd.h sent 347,313 bytes received 534 bytes 695,694.00 bytes/sec total size is 345,070 speedup is 0.99 building file list ... done sent 253 bytes received 12 bytes 530.00 bytes/sec total size is 0 speedup is 0.00 building file list ... done boost_adaptbx/ boost_adaptbx/command_line/ boost_adaptbx/command_line/__init__.py boost_adaptbx/command_line/divide_by_zero.py boost_adaptbx/command_line/double_overflow.py boost_adaptbx/command_line/gcd.py boost_adaptbx/command_line/inexact.py boost_adaptbx/command_line/int_overflow.py boost_adaptbx/command_line/lcm.py boost_adaptbx/command_line/nested_cpp_loops_with_check_signals.py boost_adaptbx/command_line/segmentation_fault.py boost_adaptbx/command_line/show_environ_usage.py boost_adaptbx/command_line/show_platform_info.py sent 7,879 bytes received 231 bytes 16,220.00 bytes/sec total size is 6,883 speedup is 0.85 building file list ... done cbflib_adaptbx/ cbflib_adaptbx/command_line/ cbflib_adaptbx/command_line/__init__.py cbflib_adaptbx/command_line/dump.py sent 1,533 bytes received 60 bytes 3,186.00 bytes/sec total size is 1,215 speedup is 0.76 building file list ... done sent 143 bytes received 12 bytes 310.00 bytes/sec total size is 0 speedup is 0.00 building file list ... done cctbx/ cctbx/command_line/ cctbx/command_line/__init__.py cctbx/command_line/auto_sharpen.py cctbx/command_line/brehm_diederichs.py cctbx/command_line/cctbx_test_nightly.py cctbx/command_line/cod_select_and_pickle.py cctbx/command_line/diffuse.py cctbx/command_line/eltbx.show_fp_fdp.py cctbx/command_line/euclidean_model_matching.py cctbx/command_line/find_reticular_twin_laws.py cctbx/command_line/form_factor_query.py cctbx/command_line/precession_view.py cctbx/command_line/qscore.py cctbx/command_line/samosa_join.py cctbx/command_line/samosa_scale.py cctbx/command_line/segment_and_split_map.py cctbx/command_line/space_group_info.py cctbx/command_line/structure_factor_timings.py cctbx/command_line/subgroups.py cctbx/command_line/version.py cctbx/command_line/wavelength_units.py cctbx/command_line/web.install.csh sent 43,136 bytes received 421 bytes 87,114.00 bytes/sec total size is 39,872 speedup is 0.92 building file list ... done sent 81 bytes received 12 bytes 186.00 bytes/sec total size is 0 speedup is 0.00 building file list ... done crys3d/ crys3d/command_line/ crys3d/command_line/HKLinfo.py crys3d/command_line/HKLviewer.py crys3d/command_line/__init__.py crys3d/command_line/compare_datasets.py crys3d/command_line/hklview.py crys3d/command_line/make_install_HKLviewer_ChimeraX.py crys3d/command_line/model_viewer.py crys3d/command_line/multiplicity_viewer.py crys3d/command_line/qttbx.view_structure.py crys3d/command_line/visualize_r_factors.py sent 32,588 bytes received 212 bytes 65,600.00 bytes/sec total size is 31,684 speedup is 0.97 building file list ... done dxtbx/ dxtbx/command_line/ dxtbx/command_line/__init__.py dxtbx/command_line/any2nexus.py dxtbx/command_line/debug_memory.py dxtbx/command_line/depends_on.py dxtbx/command_line/detector_superpose.py dxtbx/command_line/display_parallax_correction.py dxtbx/command_line/dlsnxs2cbf.py dxtbx/command_line/image2pickle.py dxtbx/command_line/image_average.py dxtbx/command_line/install_format.py dxtbx/command_line/overload.py dxtbx/command_line/plot_detector_models.py dxtbx/command_line/print_header.py dxtbx/command_line/print_matching_images.py dxtbx/command_line/radial_average.py dxtbx/command_line/read_sequence.py dxtbx/command_line/saturation.py dxtbx/command_line/show_mask_info.py dxtbx/command_line/show_matching_formats.py dxtbx/command_line/show_registry.py sent 84,165 bytes received 402 bytes 169,134.00 bytes/sec total size is 82,437 speedup is 0.97 building file list ... done fable/ fable/command_line/ fable/command_line/__init__.py fable/command_line/cout.py fable/command_line/fem_include_search_paths.py fable/command_line/insert_write_at_start_of_each_procedure.py fable/command_line/read.py fable/command_line/show_calls.py fable/command_line/split.py sent 16,378 bytes received 155 bytes 33,066.00 bytes/sec total size is 15,611 speedup is 0.94 building file list ... done gltbx/ gltbx/command_line/ gltbx/command_line/__init__.py gltbx/command_line/try_imports.py sent 882 bytes received 60 bytes 1,884.00 bytes/sec total size is 606 speedup is 0.64 building file list ... done iotbx/ iotbx/command_line/ iotbx/command_line/__init__.py iotbx/command_line/biomt_reconstruction.py iotbx/command_line/blast_pdb.py iotbx/command_line/build_phil_cache.py iotbx/command_line/cbf_read.py iotbx/command_line/cif.as_miller_arrays.py iotbx/command_line/cif.as_xray_structure.py iotbx/command_line/cif.validate.py iotbx/command_line/cif_as_pdb.py iotbx/command_line/cns.reflection_reader.py iotbx/command_line/cns.sdb_reader.py iotbx/command_line/cns.transfer_crystal_symmetry.py iotbx/command_line/cns_as_mtz.py iotbx/command_line/crystal_symmetry_from_any.py iotbx/command_line/csv_as_mtz.py iotbx/command_line/dano_as_amplitudes.py iotbx/command_line/detector_image_as_png.py iotbx/command_line/distance_least_squares.py iotbx/command_line/dtrek.to_cns.py iotbx/command_line/effective_resolution.py iotbx/command_line/emma.py iotbx/command_line/explore_metric_symmetry.py iotbx/command_line/export_scalepack_unmerged.py iotbx/command_line/file_reader.py iotbx/command_line/flip_symmetric_amino_acids.py iotbx/command_line/french_wilson.py iotbx/command_line/get_pubmed_citation.py iotbx/command_line/lattice_symmetry.py iotbx/command_line/merging_statistics.py iotbx/command_line/mtrix_reconstruction.py iotbx/command_line/mtz.dump.py iotbx/command_line/mtz_as_cif.py iotbx/command_line/patterson_map.py iotbx/command_line/pdb.as_xray_structure.py iotbx/command_line/pdb.b_factor_stats.py iotbx/command_line/pdb.box_around_molecule.py iotbx/command_line/pdb.hierarchy.py iotbx/command_line/pdb.insert_scale_records.py iotbx/command_line/pdb.join_fragment_files.py iotbx/command_line/pdb.link_as_geometry_restraints_edits.py iotbx/command_line/pdb.print_sequence.py iotbx/command_line/pdb.superpose_atoms_by_name.py iotbx/command_line/pdb.superpose_centers_of_mass.py iotbx/command_line/pdb_add_conformations.py iotbx/command_line/pdb_as_cif.py iotbx/command_line/pdb_as_fasta.py iotbx/command_line/pdb_cif_conversion.py iotbx/command_line/pdb_get_citation.py iotbx/command_line/pdb_labels_comparison.py iotbx/command_line/pdb_labels_diff.py iotbx/command_line/pdb_remediator.py iotbx/command_line/pdb_show_connectivity.py iotbx/command_line/pdb_split_models.py iotbx/command_line/phil.py iotbx/command_line/poscar_as_xray_structure.py iotbx/command_line/r_free_flags_accumulation.py iotbx/command_line/r_free_flags_as_cns.py iotbx/command_line/r_free_flags_completion_simple.py iotbx/command_line/reflection_file_converter.py iotbx/command_line/reflection_file_editor.py iotbx/command_line/reflection_file_reader.py iotbx/command_line/reflection_statistics.py iotbx/command_line/reindex.py iotbx/command_line/shelx.as_cif.py iotbx/command_line/shelx.as_xray_structure.py iotbx/command_line/shelx.dump_as_python.py iotbx/command_line/show_distances.py iotbx/command_line/show_systematic_absences.py iotbx/command_line/simple_map_coefficients.py iotbx/command_line/sort_atoms.py iotbx/command_line/split_data_cif.py iotbx/command_line/symmetry_search.py iotbx/command_line/unique_with_biomt.py iotbx/command_line/xplor.map.show_summary.py sent 252,600 bytes received 1,428 bytes 508,056.00 bytes/sec total size is 246,561 speedup is 0.97 building file list ... done libtbx/ libtbx/command_line/ libtbx/command_line/__init__.py libtbx/command_line/add_docstrings_with_ai.py libtbx/command_line/analyse_code_comments.py libtbx/command_line/any2unix.py libtbx/command_line/assert_line_count.py libtbx/command_line/assert_not_show_diff.py libtbx/command_line/assert_stdin.py libtbx/command_line/assert_stdin_contains_strings.py libtbx/command_line/assert_stdin_ends_with.py libtbx/command_line/bash.sh libtbx/command_line/bibtex.sh libtbx/command_line/bootstrap.py libtbx/command_line/bundle_as_exe.py libtbx/command_line/bundle_as_selfx.csh libtbx/command_line/cctbx_chunk.py libtbx/command_line/check_libcpp.py libtbx/command_line/clean_clutter.py libtbx/command_line/clear_paths.py libtbx/command_line/configure.bat libtbx/command_line/configure.sh libtbx/command_line/create_cctbx_bundle_for_installer.py libtbx/command_line/create_install_script_bat.py libtbx/command_line/create_installer.py libtbx/command_line/create_mac_app.py libtbx/command_line/create_selfx.py libtbx/command_line/create_unzipsfx.py libtbx/command_line/create_windows_exe.py libtbx/command_line/csh.sh libtbx/command_line/dtrace.py libtbx/command_line/easy_qsub.py libtbx/command_line/env_run.py libtbx/command_line/epydoc_run.py libtbx/command_line/exec.sh libtbx/command_line/extract_code_from_txt.py libtbx/command_line/find_clutter.py libtbx/command_line/find_files.py libtbx/command_line/find_in_repositories.py libtbx/command_line/find_old_style_classes.py libtbx/command_line/find_pdb_mmcif_problems.py libtbx/command_line/find_reserved_names.py libtbx/command_line/find_under_build.py libtbx/command_line/find_untested.py libtbx/command_line/find_unused_imports.py libtbx/command_line/find_unused_imports_crude.py libtbx/command_line/gdb.sh libtbx/command_line/git_avoid_merges.py libtbx/command_line/help.py libtbx/command_line/import_all_ext.py libtbx/command_line/import_all_python.py libtbx/command_line/install.py libtbx/command_line/install_conda.py libtbx/command_line/ipython_shell_start.py libtbx/command_line/latex.sh libtbx/command_line/line_count.py libtbx/command_line/list_files.py libtbx/command_line/list_modules.py libtbx/command_line/list_source_files_sorted_by_size.py libtbx/command_line/make_dist.py libtbx/command_line/make_sphinx_html.py libtbx/command_line/nequal.py libtbx/command_line/parallel_simple.py libtbx/command_line/path_utility.py libtbx/command_line/pdflatex.sh libtbx/command_line/phil.py libtbx/command_line/prime_factors_of.py libtbx/command_line/printenv.py libtbx/command_line/py_compile_all.py libtbx/command_line/raise_exception_for_testing.py libtbx/command_line/refresh.bat libtbx/command_line/refresh.sh libtbx/command_line/reindent.py libtbx/command_line/remote_processing.py libtbx/command_line/remove_tree.py libtbx/command_line/remove_unused_imports.py libtbx/command_line/resource_monitor_plot.py libtbx/command_line/run_pickled_function.py libtbx/command_line/run_tests_parallel.py libtbx/command_line/scons.py libtbx/command_line/seconds_since_the_epoch.py libtbx/command_line/sge_available_slots.py libtbx/command_line/sge_qstat_counts.py libtbx/command_line/sh.sh libtbx/command_line/show_all_on_path.py libtbx/command_line/show_bin_path.py libtbx/command_line/show_build_options.py libtbx/command_line/show_build_path.py libtbx/command_line/show_but_no_repr.py libtbx/command_line/show_commands.py libtbx/command_line/show_date_and_time.py libtbx/command_line/show_dist_paths.py libtbx/command_line/show_env.py libtbx/command_line/show_environ_usage.py libtbx/command_line/show_full_command_path.py libtbx/command_line/show_host_and_user.py libtbx/command_line/show_include_paths.py libtbx/command_line/show_lib_path.py libtbx/command_line/show_module_dependencies.py libtbx/command_line/show_number_of_processors.py libtbx/command_line/show_numeric_version.py libtbx/command_line/show_numpy_version.py libtbx/command_line/show_python_dependencies.py libtbx/command_line/show_python_sys_executable.py libtbx/command_line/show_pythonpath.py libtbx/command_line/show_repository_paths.py libtbx/command_line/show_tests.py libtbx/command_line/show_variable_names.py libtbx/command_line/sphinx_build.py libtbx/command_line/start_binary_bundle.py libtbx/command_line/start_process.py libtbx/command_line/tcsh.sh libtbx/command_line/unpack_in_sources.csh libtbx/command_line/valgrind.sh libtbx/command_line/wait_for_file.py sent 229,738 bytes received 2,169 bytes 463,814.00 bytes/sec total size is 220,704 speedup is 0.95 building file list ... done mmtbx/ mmtbx/command_line/ mmtbx/command_line/__init__.py mmtbx/command_line/altloc_remediate.py mmtbx/command_line/angle.py mmtbx/command_line/apply_ncs_to_ligand.py mmtbx/command_line/arginine_geometry.py mmtbx/command_line/atom_valence_simple.py mmtbx/command_line/barbed_wire_analysis.py mmtbx/command_line/cablam.py mmtbx/command_line/cablam_idealization.py mmtbx/command_line/cbetadev.py mmtbx/command_line/cc_star.py mmtbx/command_line/chiral_validation.py mmtbx/command_line/cif_as_mtz.py mmtbx/command_line/clashscore.py mmtbx/command_line/clashscore2.py mmtbx/command_line/comparama.py mmtbx/command_line/debug_riding.py mmtbx/command_line/density_modification.py mmtbx/command_line/development_aev.py mmtbx/command_line/development_fem.py mmtbx/command_line/distance_difference.py mmtbx/command_line/dynamics.py mmtbx/command_line/electrons.py mmtbx/command_line/emringer.py mmtbx/command_line/emringer_score.py mmtbx/command_line/estimate_bijvoet_ratio.py mmtbx/command_line/f000.py mmtbx/command_line/fab_elbow_angle.py mmtbx/command_line/fake_f_obs.py mmtbx/command_line/fetch_pdb.py mmtbx/command_line/find_peaks_holes.py mmtbx/command_line/find_residue_in_pdb.py mmtbx/command_line/find_tls_groups.py mmtbx/command_line/fmodel.py mmtbx/command_line/fobs_minus_fobs_map.py mmtbx/command_line/geometry_minimization.py mmtbx/command_line/grow_density.py mmtbx/command_line/hbond.py mmtbx/command_line/helix_sheet_recs_as_pdb_files.py mmtbx/command_line/holton_geometry_validation.py mmtbx/command_line/hydrogenate.py mmtbx/command_line/kinemage.py mmtbx/command_line/ligand_restraints_validation.py mmtbx/command_line/map_box.py mmtbx/command_line/map_comparison.py mmtbx/command_line/map_to_model_histogram.py mmtbx/command_line/map_to_structure_factors.py mmtbx/command_line/maps.py mmtbx/command_line/mask.py mmtbx/command_line/massage_data.py mmtbx/command_line/matthews.py mmtbx/command_line/maximum_entropy_map.py mmtbx/command_line/model_idealization.py mmtbx/command_line/model_map.py mmtbx/command_line/model_model_distances.py mmtbx/command_line/model_vs_data.py mmtbx/command_line/model_vs_map.py mmtbx/command_line/model_vs_sequence.py mmtbx/command_line/models_as_chains.py mmtbx/command_line/molprobity.py mmtbx/command_line/mon_lib_cif_triage.py mmtbx/command_line/mp_geo.py mmtbx/command_line/mp_validate_bonds.py mmtbx/command_line/mtz2map.py mmtbx/command_line/next_gen_atom_typing.py mmtbx/command_line/nonbonded_overlaps.py mmtbx/command_line/omegalyze.py mmtbx/command_line/pdb_atom_selection.py mmtbx/command_line/pdb_interpretation.py mmtbx/command_line/pdbtools.py mmtbx/command_line/perigee.py mmtbx/command_line/plan_sad_experiment.py mmtbx/command_line/polder.py mmtbx/command_line/prepare_pdb_deposition.py mmtbx/command_line/probe2.py mmtbx/command_line/probescore_ligand.py mmtbx/command_line/process_predicted_model.py mmtbx/command_line/prune_model.py mmtbx/command_line/quantum_interface.py mmtbx/command_line/r_factor_statistics.py mmtbx/command_line/rama_z.py mmtbx/command_line/ramalyze.py mmtbx/command_line/rank_scale_map.py mmtbx/command_line/real_space_correlation.py mmtbx/command_line/real_space_diff_map.py mmtbx/command_line/rebuild_cablam_cache.py mmtbx/command_line/rebuild_rotarama_cache.py mmtbx/command_line/reciprocal_space_arrays.py mmtbx/command_line/reduce2.py mmtbx/command_line/reduce_cryoem_resolution.py mmtbx/command_line/refine_anomalous_substructure.py mmtbx/command_line/remove_outliers.py mmtbx/command_line/ribbons.py mmtbx/command_line/rigid_bond_test.py mmtbx/command_line/ringer.py mmtbx/command_line/rna_validate.py mmtbx/command_line/rna_validate_bonds.py mmtbx/command_line/rna_validate_puckers.py mmtbx/command_line/rna_validate_suites.py mmtbx/command_line/rotalyze.py mmtbx/command_line/search_pdb_symmetry.py mmtbx/command_line/secondary_structure_restraints.py mmtbx/command_line/secondary_structure_validation.py mmtbx/command_line/select_best_starting_model.py mmtbx/command_line/show_r_factors_by_shell.py mmtbx/command_line/sisa.py mmtbx/command_line/sort_hetatms.py mmtbx/command_line/ss_idealization.py mmtbx/command_line/suitename.py mmtbx/command_line/suitename_old.py mmtbx/command_line/super.py mmtbx/command_line/superpose.py mmtbx/command_line/taam_minus_iam.py mmtbx/command_line/table_one.py mmtbx/command_line/tls.py mmtbx/command_line/tls_analysis.py mmtbx/command_line/tls_as_xyz.py mmtbx/command_line/undowser.py mmtbx/command_line/undowser2.py mmtbx/command_line/validate_H_cl_app.py mmtbx/command_line/validate_ligands.py mmtbx/command_line/validation_summary.py mmtbx/command_line/verify_mon_lib_data.py mmtbx/command_line/water_b_factors.py mmtbx/command_line/where_is_that_cif_file.py mmtbx/command_line/xmanip.py mmtbx/command_line/xtrapol8.py mmtbx/command_line/xtriage.py mmtbx/regression/ mmtbx/regression/command_line/ mmtbx/regression/command_line/tst_find_residue_in_pdb.py sent 727,897 bytes received 2,479 bytes 1,460,752.00 bytes/sec total size is 717,429 speedup is 0.98 building file list ... done sent 70 bytes received 12 bytes 164.00 bytes/sec total size is 0 speedup is 0.00 building file list ... done rstbx/ rstbx/command_line/ rstbx/command_line/__init__.py rstbx/command_line/example_viewer.py rstbx/command_line/index.py rstbx/command_line/simage.create.py rstbx/command_line/simage.explore_completeness.py rstbx/command_line/simage.solver.py rstbx/command_line/simage.wx_display.py rstbx/command_line/slip_viewer.py rstbx/command_line/viewer.py sent 12,288 bytes received 193 bytes 24,962.00 bytes/sec total size is 11,139 speedup is 0.89 building file list ... done scitbx/ scitbx/command_line/ scitbx/command_line/__init__.py scitbx/command_line/apply_tapenade_hints.py scitbx/command_line/generate_error_h.py scitbx/command_line/histogram.py scitbx/command_line/show_exp_times.py scitbx/command_line/show_sizes.py scitbx/command_line/unicode_examples.py sent 11,858 bytes received 155 bytes 24,026.00 bytes/sec total size is 10,021 speedup is 0.83 building file list ... done sent 154 bytes received 12 bytes 332.00 bytes/sec total size is 0 speedup is 0.00 building file list ... done smtbx/ smtbx/command_line/ smtbx/command_line/__init__.py smtbx/command_line/absolute_structure.py smtbx/command_line/anom_refine.py smtbx/command_line/benchmark_refinement.py smtbx/command_line/masks.py smtbx/command_line/refine.py sent 38,578 bytes received 136 bytes 77,428.00 bytes/sec total size is 37,436 speedup is 0.97 building file list ... done spotfinder/ spotfinder/command_line/ spotfinder/command_line/__init__.py spotfinder/command_line/find_active_area.py spotfinder/command_line/image_viewer.py spotfinder/command_line/mp_spotfinder_server_read_file.py spotfinder/command_line/signal_strength.py spotfinder/command_line/sweep_strength.py spotfinder/command_line/thin_client.py sent 23,566 bytes received 155 bytes 47,442.00 bytes/sec total size is 22,750 speedup is 0.96 building file list ... done sent 81 bytes received 12 bytes 186.00 bytes/sec total size is 0 speedup is 0.00 building file list ... done wxtbx/ wxtbx/command_line/ wxtbx/command_line/__init__.py wxtbx/command_line/anomalous_differences_histogram.py wxtbx/command_line/b_plot.py wxtbx/command_line/inspect_r_free_flags.py wxtbx/command_line/loggraph.py wxtbx/command_line/pdb_editor.py wxtbx/command_line/pdb_statistics.py wxtbx/command_line/plan_sad_experiment.py wxtbx/command_line/plot_anomalous_scattering.py wxtbx/command_line/show_file_info.py wxtbx/command_line/wxpython.py wxtbx/command_line/xtriage.py sent 17,087 bytes received 250 bytes 34,674.00 bytes/sec total size is 16,108 speedup is 0.93 building file list ... done sent 253 bytes received 12 bytes 530.00 bytes/sec total size is 0 speedup is 0.00 building file list ... done boost_adaptbx/graph/ boost_adaptbx/graph/tests/ boost_adaptbx/graph/tests/tst_graph.py boost_adaptbx/graph/tests/tst_graph_breadth_first_search.py boost_adaptbx/graph/tests/tst_graph_clustering_algorithm.py boost_adaptbx/graph/tests/tst_graph_connected_component_algorithm.py boost_adaptbx/graph/tests/tst_graph_graph_structure_comparison.py boost_adaptbx/graph/tests/tst_graph_maximum_clique.py boost_adaptbx/graph/tests/tst_graph_metric.py boost_adaptbx/graph/tests/tst_graph_min_cut_max_flow.py boost_adaptbx/graph/tests/tst_graph_minimum_cut_enumerate.py boost_adaptbx/graph/tests/tst_graph_utility.py boost_adaptbx/tests/ boost_adaptbx/tests/tst_boost_thread.py boost_adaptbx/tests/tst_char_array.py boost_adaptbx/tests/tst_deprecation_tools.py boost_adaptbx/tests/tst_libc_backtrace.py boost_adaptbx/tests/tst_optional.py boost_adaptbx/tests/tst_optional_copy.cpp boost_adaptbx/tests/tst_optional_copy.h boost_adaptbx/tests/tst_python_streambuf.py boost_adaptbx/tests/tst_rational.py boost_adaptbx/tests/tst_std_pair.py boost_adaptbx/tests/tst_stderr_stdout.py boost_adaptbx/tests/tst_stdin.py boost_adaptbx/tests/tst_stdout.py boost_adaptbx/tests/tst_string_representation.py boost_adaptbx/tests/tst_swig_args.py boost_adaptbx/tests/tst_tuple.py sent 91,621 bytes received 515 bytes 184,272.00 bytes/sec total size is 89,629 speedup is 0.97 building file list ... done cbflib_adaptbx/detectors/ cbflib_adaptbx/detectors/tst_memory.cpp sent 1,199 bytes received 34 bytes 2,466.00 bytes/sec total size is 967 speedup is 0.78 building file list ... done ccp4io_adaptbx/ ccp4io_adaptbx/tst.py ccp4io_adaptbx/dev/ ccp4io_adaptbx/dev/tst_fftlib.py sent 9,502 bytes received 60 bytes 19,124.00 bytes/sec total size is 9,204 speedup is 0.96 building file list ... done cctbx/adp_restraints/ cctbx/adp_restraints/tst_ext.py cctbx/adptbx/ cctbx/adptbx/boost_python/ cctbx/adptbx/boost_python/tst_adptbx.py cctbx/adptbx/boost_python/tst_hirshfeld.py cctbx/array_family/ cctbx/array_family/boost_python/ cctbx/array_family/boost_python/tst_flex.py cctbx/covariance/ cctbx/covariance/tests/ cctbx/covariance/tests/tst_covariance.py cctbx/crystal/ cctbx/crystal/tst_distance_based_connectivity.py cctbx/crystal/tst_ext.py cctbx/crystal/tst_super_cell.py cctbx/development/ cctbx/development/tst_cns_epsilon.py cctbx/development/tst_cns_hl.py cctbx/dispersion/ cctbx/dispersion/tests/ cctbx/dispersion/tests/tst_kramers_kronig.py cctbx/dispersion/tests/tst_kramers_kronig_helper.py cctbx/dispersion/tests/tst_kramers_kronig_optimize.py cctbx/dmtbx/ cctbx/dmtbx/boost_python/ cctbx/dmtbx/boost_python/tst_dmtbx.py cctbx/eltbx/ cctbx/eltbx/tests/ cctbx/eltbx/tests/tst_attenuation_coefficient.py cctbx/eltbx/tests/tst_chemical_elements.py cctbx/eltbx/tests/tst_covalent_radii.py cctbx/eltbx/tests/tst_formula.py cctbx/eltbx/tests/tst_henke.py cctbx/eltbx/tests/tst_icsd_radii.py cctbx/eltbx/tests/tst_neutron.py cctbx/eltbx/tests/tst_sasaki.py cctbx/eltbx/tests/tst_tiny_pse.py cctbx/eltbx/tests/tst_wavelengths.py cctbx/eltbx/tests/tst_xray_scattering.py cctbx/examples/ cctbx/examples/tst_exp_i_alpha_derivatives.py cctbx/examples/tst_g_exp_i_alpha_derivatives.py cctbx/examples/tst_phase_o_phrenia.py cctbx/examples/tst_space_subgroups.py cctbx/examples/tst_structure_factor_derivatives.py cctbx/examples/tst_structure_factor_derivatives_2.py cctbx/examples/tst_structure_factor_derivatives_3.py cctbx/examples/tst_structure_factor_derivatives_4.py cctbx/examples/merging/ cctbx/examples/merging/tst_permutations.py cctbx/geometry/ cctbx/geometry/tests/ cctbx/geometry/tests/tst_geometry.py cctbx/geometry_restraints/ cctbx/geometry_restraints/tst_angle_derivs.py cctbx/geometry_restraints/tst_ext.py cctbx/geometry_restraints/tst_motif.py cctbx/geometry_restraints/tst_process_nonbonded_proxies.py cctbx/geometry_restraints/tst_proxy_registry.py cctbx/maptbx/ cctbx/maptbx/tst_asymmetric_map.py cctbx/maptbx/tst_atom_curves.py cctbx/maptbx/tst_atom_radius_as_central_peak_width.py cctbx/maptbx/tst_bcr.py cctbx/maptbx/tst_ccp.py cctbx/maptbx/tst_get_percentile_cutoffs.py cctbx/maptbx/tst_interpolation.py cctbx/maptbx/tst_interpolation_2.py cctbx/maptbx/tst_loft.py cctbx/maptbx/tst_map_peak_3d_as_2d.py cctbx/maptbx/tst_mask.py cctbx/maptbx/tst_peak_volume_estimate.py cctbx/maptbx/tst_qscore.py cctbx/maptbx/tst_real_space_refinement_simple.py cctbx/maptbx/tst_resolution_from_map_and_model.py cctbx/maptbx/tst_target_and_gradients.py cctbx/maptbx/bcr/ cctbx/maptbx/bcr/tst_adp_refine.py cctbx/maptbx/bcr/tst_example.py cctbx/maptbx/bcr/tst_qmap_02.py cctbx/maptbx/bcr/tst_table.py cctbx/maptbx/bcr/tst_two_atoms.py cctbx/maptbx/bcr/tst_vrm.py cctbx/maptbx/bcr/tst_vrm2.py cctbx/maptbx/boost_python/ cctbx/maptbx/boost_python/tst_maptbx.py cctbx/masks/ cctbx/masks/tests/ cctbx/masks/tests/tst_flood_fill.py cctbx/math/ cctbx/math/boost_python/ cctbx/math/boost_python/tst_math.py cctbx/miller/ cctbx/miller/tst_map_to_asu_isym.py cctbx/miller/tst_reindexing.py cctbx/miller/boost_python/ cctbx/miller/boost_python/tst_miller.py cctbx/multipolar/ cctbx/multipolar/regression/ cctbx/multipolar/regression/tst_multipolar.py cctbx/omz/ cctbx/omz/tst_bfgs.py cctbx/omz/tst_cod.csh cctbx/omz/tst_dev.py cctbx/regression/ cctbx/regression/tst_adp_aniso_restraints.py cctbx/regression/tst_adp_constraints.py cctbx/regression/tst_adp_constraints_cartesian.py cctbx/regression/tst_amplitude_normalisation.py cctbx/regression/tst_change_basis.py cctbx/regression/tst_connectivity.py cctbx/regression/tst_connectivity_allsym.py cctbx/regression/tst_coordination_sequences.py cctbx/regression/tst_create_models_or_maps.py cctbx/regression/tst_crystal.py cctbx/regression/tst_crystal_asu_clusters.py cctbx/regression/tst_crystal_close_packing.py cctbx/regression/tst_diffuse.py cctbx/regression/tst_direct_scaling.py cctbx/regression/tst_direct_space_asu.py cctbx/regression/tst_emma.py cctbx/regression/tst_expand_to_p1.py cctbx/regression/tst_f_model.py cctbx/regression/tst_fast_nv1995.py cctbx/regression/tst_fcalc_fft_stability.py cctbx/regression/tst_find_best_cell.py cctbx/regression/tst_fourier_transform_real_part_at_x.py cctbx/regression/tst_french_wilson.py cctbx/regression/tst_geometry_restraints.py cctbx/regression/tst_geometry_restraints_2.py cctbx/regression/tst_geometry_restraints_lbfgs.py cctbx/regression/tst_grm_modifications.py cctbx/regression/tst_grm_modifications_rm.py cctbx/regression/tst_grm_pickling.py cctbx/regression/tst_grouped_data.py cctbx/regression/tst_itvb_2001_table_a1427_hall_symbols.py cctbx/regression/tst_krivy_gruber.py cctbx/regression/tst_loc_res.py cctbx/regression/tst_map_is_periodic.py cctbx/regression/tst_map_weights_for_symmetry_summation.py cctbx/regression/tst_maptbx_box.py cctbx/regression/tst_maptbx_mask.py cctbx/regression/tst_maptbx_structure_factors.py cctbx/regression/tst_math_module.py cctbx/regression/tst_mem.py cctbx/regression/tst_mem_2.py cctbx/regression/tst_miller.py cctbx/regression/tst_miller_data_manipulation.py cctbx/regression/tst_miller_double_step_filtration.py cctbx/regression/tst_miller_fft_map.py cctbx/regression/tst_miller_lookup_utils.py cctbx/regression/tst_miller_merge_equivalents.py cctbx/regression/tst_miller_statistics.py cctbx/regression/tst_niggli_reduction_cpp.py cctbx/regression/tst_pair_asu_table.py cctbx/regression/tst_pointgroup_tools.py cctbx/regression/tst_prepare_map_for_docking.py cctbx/regression/tst_r_free_utils.py cctbx/regression/tst_reciprocal_space_asu.py cctbx/regression/tst_refine_xray_curvs.py cctbx/regression/tst_reflection_statistics.py cctbx/regression/tst_sampled_model_density.py cctbx/regression/tst_sf_low_res_accuracy.py cctbx/regression/tst_sgtbx.py cctbx/regression/tst_sgtbx_denominators.py cctbx/regression/tst_sgtbx_harker.py cctbx/regression/tst_sgtbx_lattice_symmetry.py cctbx/regression/tst_sgtbx_site_constraints.py cctbx/regression/tst_sgtbx_special_op_simplifier.py cctbx/regression/tst_sgtbx_subgroups.py cctbx/regression/tst_sgtbx_tidy_pickling.py cctbx/regression/tst_show_cosets.py cctbx/regression/tst_space_group_type_tidy_cb_op_t.py cctbx/regression/tst_sphericity.py cctbx/regression/tst_statistics_graphs.py cctbx/regression/tst_triplet_generator.py cctbx/regression/tst_twin_target.py cctbx/regression/tst_wavelength_units.py cctbx/regression/tst_web_change_basis.py cctbx/regression/tst_weighting_schemes.py cctbx/regression/tst_wilson_plot.py cctbx/regression/tst_xray.py cctbx/regression/tst_xray_derivatives.py cctbx/regression/tst_xray_fast_gradients.py cctbx/regression/tst_xray_minimization.py cctbx/regression/tst_xray_minimization_failure.py cctbx/regression/tst_xray_target_functors.py cctbx/sgtbx/ cctbx/sgtbx/boost_python/ cctbx/sgtbx/boost_python/tst_N_fold_rot.py cctbx/sgtbx/boost_python/tst_sgtbx.py cctbx/sgtbx/direct_space_asu/ cctbx/sgtbx/direct_space_asu/proto/ cctbx/sgtbx/direct_space_asu/proto/tst_asu.cpp cctbx/sgtbx/direct_space_asu/proto/tst_asu.py cctbx/symmetry_search/ cctbx/symmetry_search/tests/ cctbx/symmetry_search/tests/tst_from_map.py cctbx/symmetry_search/tests/tst_goodness_of_symmetry.py cctbx/translation_search/ cctbx/translation_search/boost_python/ cctbx/translation_search/boost_python/tst_translation_search.py cctbx/uctbx/ cctbx/uctbx/boost_python/ cctbx/uctbx/boost_python/tst_crystal_orientation.py cctbx/uctbx/boost_python/tst_uctbx.py cctbx/uctbx/lrl/ cctbx/uctbx/lrl/tst_match_lattices.py cctbx/xray/ cctbx/xray/boost_python/ cctbx/xray/boost_python/tst_f_model.py cctbx/xray/boost_python/tst_targets_fd.py cctbx/xray/boost_python/tst_xray.py cctbx/xray/observations/ cctbx/xray/observations/tst_observations.py cctbx/xray/targets/ cctbx/xray/targets/tst_r1.py cctbx/xray/targets/tst_shelxl_wght_ls.py sent 2,096,889 bytes received 3,409 bytes 4,200,596.00 bytes/sec total size is 2,082,707 speedup is 0.99 building file list ... done cma_es/ cma_es/tst_cma_es.py sent 3,163 bytes received 38 bytes 6,402.00 bytes/sec total size is 3,008 speedup is 0.94 building file list ... done crys3d/regression/ crys3d/regression/tst_HKLviewerOSbrowserBinFSigF.py crys3d/regression/tst_HKLviewerOSbrowserSliceK-9.py crys3d/regression/tst_HKLviewerQtGuiBinFSigF.py crys3d/regression/tst_HKLviewerQtGuiSliceK-9.py crys3d/regression/tst_hklinfo.py crys3d/regression/tst_websocket.py sent 42,502 bytes received 129 bytes 85,262.00 bytes/sec total size is 41,869 speedup is 0.98 building file list ... done sent 599 bytes received 12 bytes 1,222.00 bytes/sec total size is 0 speedup is 0.00 building file list ... done fable/tst_cout.py fable/tst_cout_compile.py fable/tst_equivalence.py fable/tst_ext.py fable/tst_read.py fable/test/ fable/test/tst_command_line.py fable/test/tst_io.py fable/test/tst_separate_files.py fable/test/tst_show_calls.py sent 152,755 bytes received 186 bytes 305,882.00 bytes/sec total size is 151,869 speedup is 0.99 building file list ... done gltbx/tst.py gltbx/tst_ellipsoids.py gltbx/tst_fonts.py gltbx/tst_viewer_utils.py sent 8,484 bytes received 88 bytes 17,144.00 bytes/sec total size is 8,108 speedup is 0.95 building file list ... done iotbx/bioinformatics/ iotbx/bioinformatics/test/ iotbx/bioinformatics/test/tst_alignment_as_hsearch.py iotbx/bioinformatics/test/tst_ebi_wu_blast_xml.py iotbx/bioinformatics/test/tst_local_blast.py iotbx/bioinformatics/test/tst_ncbi_blast_xml.py iotbx/ccp4_map/ iotbx/ccp4_map/tst.py iotbx/ccp4_map/tst_input.map iotbx/cif/ iotbx/cif/tests/ iotbx/cif/tests/tst_citations.py iotbx/cif/tests/tst_cod.py iotbx/cif/tests/tst_crystal_symmetry_builder.py iotbx/cif/tests/tst_geometry.py iotbx/cif/tests/tst_lex_parse_build.py iotbx/cif/tests/tst_model.py iotbx/cif/tests/tst_model_builder.py iotbx/cif/tests/tst_parser.py iotbx/cif/tests/tst_restraints.py iotbx/cif/tests/tst_ucif_examples_compilation.py iotbx/cif/tests/tst_validation.py iotbx/cns/ iotbx/cns/tst_cns.py iotbx/detectors/ iotbx/detectors/tst_adsc.py iotbx/detectors/tst_cbf_comp_read_meth.py iotbx/detectors/tst_debug_write.py iotbx/detectors/tst_detectors.py iotbx/detectors/tst_py_cbf.py iotbx/dsn6/ iotbx/dsn6/tst.py iotbx/examples/ iotbx/examples/tst_mtz_free_flipper.py iotbx/examples/pdb_truncate_to_ala/ iotbx/examples/pdb_truncate_to_ala/tst.py iotbx/gui_tools/ iotbx/gui_tools/tst.py iotbx/kriber/ iotbx/kriber/tst_strudat.py iotbx/mtz/ iotbx/mtz/tst.py iotbx/mtz/tst_dano.py iotbx/mtz/tst_ext.py iotbx/mtz/tst_extract_from_symmetry_lib.py iotbx/mtz/tst_miller_dict.py iotbx/mtz/tst_unmerged.py iotbx/pdb/ iotbx/pdb/tst_atom_name_interpretation.py iotbx/pdb/tst_atom_selection.py iotbx/pdb/tst_atom_selection_string.py iotbx/pdb/tst_ext.py iotbx/pdb/tst_extract_rfactors_resolutions_sigma.py iotbx/pdb/tst_hierarchy.py iotbx/pdb/tst_hierarchy_atom_sort.py iotbx/pdb/tst_hierarchy_flip_symmetric.py iotbx/pdb/tst_hierarchy_flip_symmetric_2.py iotbx/pdb/tst_mmcif.py iotbx/pdb/tst_mmcif_hierarchy.py iotbx/pdb/tst_mmcif_hierarchy_2.py iotbx/pdb/tst_pdb.py iotbx/pdb/tst_read_mtrix_records_from_cif.py iotbx/pdb/tst_rna_dna_atom_names.py iotbx/pdb/tst_secondary_structure.py iotbx/pdb/tst_secondary_structure_2.py iotbx/pdb/tst_tls.py iotbx/pdb/tst_utils.py iotbx/pdb/remediation/ iotbx/pdb/remediation/tst_remediator.py iotbx/regression/ iotbx/regression/tst_add_conformations.py iotbx/regression/tst_all_chain_ids.py iotbx/regression/tst_atom_selections_10k.py iotbx/regression/tst_bioinformatics.py iotbx/regression/tst_box_around_molecule.py iotbx/regression/tst_cif_1.py iotbx/regression/tst_cif_as_pdb_1atom.py iotbx/regression/tst_cli_parser.py iotbx/regression/tst_crystal_symmetry_from_any.py iotbx/regression/tst_csv_utils.py iotbx/regression/tst_data_manager.py iotbx/regression/tst_data_plots.py iotbx/regression/tst_examples.py iotbx/regression/tst_export_scalepack_unmerged.py iotbx/regression/tst_extract_xtal_data.py iotbx/regression/tst_fetch.py iotbx/regression/tst_file_reader.py iotbx/regression/tst_generate_n_char_string.py iotbx/regression/tst_group_rounding.py iotbx/regression/tst_hierarchy_altlocs.py iotbx/regression/tst_hierarchy_copy_select.py iotbx/regression/tst_hierarchy_forward_compatible_pdb.py iotbx/regression/tst_hierarchy_id_str.py iotbx/regression/tst_hierarchy_long_chain_ids_1.py iotbx/regression/tst_hierarchy_long_resname_1.py iotbx/regression/tst_hierarchy_long_resname_2.py iotbx/regression/tst_hierarchy_long_resname_3.py iotbx/regression/tst_hierarchy_long_resname_4.py iotbx/regression/tst_hierarchy_merge_atoms_at_end_to_residues.py iotbx/regression/tst_hierarchy_occupancies_rounding.py iotbx/regression/tst_hierarchy_pdb_v3.py iotbx/regression/tst_lattice_symmetry.py iotbx/regression/tst_map_manager.py iotbx/regression/tst_map_manager_2.py iotbx/regression/tst_map_manager_wrapping.py iotbx/regression/tst_map_model_manager.py iotbx/regression/tst_map_model_manager_2.py iotbx/regression/tst_map_model_manager_3.py iotbx/regression/tst_map_model_manager_4.py iotbx/regression/tst_map_model_manager_9_remove_origin_shift_and_unit_cell_crystal_symmetry.py iotbx/regression/tst_map_model_manager_9_remove_origin_shift_and_unit_cell_crystal_symmetry_cif.py iotbx/regression/tst_map_model_manager_call_consistency.py iotbx/regression/tst_map_model_manager_cif.py iotbx/regression/tst_map_model_manager_external_sharpening_7.py iotbx/regression/tst_map_model_manager_half_map_sharpening_6.py iotbx/regression/tst_map_model_manager_local_resolution_10.py iotbx/regression/tst_map_model_manager_model_sharpening_5.py iotbx/regression/tst_map_model_manager_model_sharpening_5_cif.py iotbx/regression/tst_map_model_manager_tls_from_map_8.py iotbx/regression/tst_map_tools.py iotbx/regression/tst_merging_statistics.py iotbx/regression/tst_miller_sort_asu.py iotbx/regression/tst_mmcif_input.py iotbx/regression/tst_mmcif_multimodel.py iotbx/regression/tst_mmcif_segids.py iotbx/regression/tst_mmcif_to_from_hierarchy.py iotbx/regression/tst_mrc_io.py iotbx/regression/tst_mtz_as_cif.py iotbx/regression/tst_patterson.py iotbx/regression/tst_pdb_as_cif.py iotbx/regression/tst_pdb_as_fasta.py iotbx/regression/tst_pdb_cif_cells.py iotbx/regression/tst_pdb_cif_inputs.py iotbx/regression/tst_pdb_link_records.py iotbx/regression/tst_pdbx_mmcif_tutorial.py iotbx/regression/tst_phases.py iotbx/regression/tst_phil.py iotbx/regression/tst_poscar.py iotbx/regression/tst_reflection_file_editor.py iotbx/regression/tst_reflection_file_reader.py iotbx/regression/tst_reflection_file_utils.py iotbx/regression/tst_reflection_statistics.py iotbx/regression/tst_reindex.py iotbx/regression/tst_restraints_merge.py iotbx/regression/tst_selected_hierarchy_flip.py iotbx/regression/tst_show_systematic_absences.py iotbx/regression/tst_simple_map_coefficients.py iotbx/regression/tst_simple_parser.py iotbx/regression/tst_sort_atoms.py iotbx/regression/tst_split_data_cif.py iotbx/regression/tst_split_models.py iotbx/regression/tst_symmetry.py iotbx/regression/tst_wildcard.py iotbx/regression/tst_xray_scale.py iotbx/regression/ncs/ iotbx/regression/ncs/tst_mmcif_biomt_reduction_output.py iotbx/regression/ncs/tst_mtrix_biomt_cmdl.py iotbx/regression/ncs/tst_ncs.py iotbx/regression/ncs/tst_ncs_groups_preprocessing.py iotbx/regression/ncs/tst_ncs_input.py iotbx/regression/ncs/tst_ncs_reordered_chains.py iotbx/regression/ncs/tst_ncs_search_broken_chain.py iotbx/regression/ncs/tst_ncs_search_ligs.py iotbx/regression/ncs/tst_ncs_search_shortcut_1.py iotbx/regression/ncs/tst_ncs_user_selections.py iotbx/regression/ncs/tst_ncs_without_validation.py iotbx/regression/secondary_structure/ iotbx/regression/secondary_structure/tst_annotation.py iotbx/regression/secondary_structure/tst_annotation_long.py iotbx/regression/secondary_structure/tst_sheet.py iotbx/scalepack/ iotbx/scalepack/tst_merge.py iotbx/scalepack/tst_no_merge_original_index.py iotbx/shelx/ iotbx/shelx/tst_fvar_encoding.py iotbx/shelx/tst_hklf.py iotbx/shelx/tst_lex_parse_build.py iotbx/shelx/tst_writer.py iotbx/xds/ iotbx/xds/tests/ iotbx/xds/tests/tst_integrate_hkl.py iotbx/xds/tests/tst_spots_xds.py iotbx/xds/tests/tst_xds_inp.py iotbx/xds/tests/tst_xparm.py iotbx/xplor/ iotbx/xplor/tst_xplormap.py sent 2,505,529 bytes received 3,182 bytes 5,017,422.00 bytes/sec total size is 2,492,940 speedup is 0.99 building file list ... done libtbx/tst_add_docstrings_with_ai.py libtbx/tst_binary_search.py libtbx/tst_citations.py libtbx/tst_containers.py libtbx/tst_dlite.py libtbx/tst_easy_mp.py libtbx/tst_easy_mp_multicore.py libtbx/tst_easy_mp_state.py libtbx/tst_easy_pickle.py libtbx/tst_find_unused_imports.py libtbx/tst_fully_buffered_timeout.py libtbx/tst_mahalanobis.py libtbx/tst_math_utils.py libtbx/tst_object_oriented_patterns.py libtbx/tst_path.py libtbx/tst_program_template.py libtbx/tst_python_code_parsing.py libtbx/tst_representation.py libtbx/tst_run_tests_parallel_retry.py libtbx/tst_run_tests_parallel_unique_dirs.py libtbx/tst_runtime_utils.py libtbx/tst_scheduling.py libtbx/tst_str_utils.py libtbx/tst_thread_utils.py libtbx/tst_topological_sort.py libtbx/tst_utils.py libtbx/tst_version.py libtbx/tst_word_index_generator.py libtbx/tst_xmlrpc_utils.py libtbx/langchain/ libtbx/langchain/agent/ libtbx/langchain/agent/tst_agent_enhancements.py libtbx/langchain/tests/ libtbx/langchain/tests/tst_abort_message_all_stops.py libtbx/langchain/tests/tst_action_item_1.py libtbx/langchain/tests/tst_advice_preprocessing.py libtbx/langchain/tests/tst_api_schema.py libtbx/langchain/tests/tst_audit_fixes.py libtbx/langchain/tests/tst_autosol_bugs.py libtbx/langchain/tests/tst_backward_compat.py libtbx/langchain/tests/tst_best_files_tracker.py libtbx/langchain/tests/tst_command_builder.py libtbx/langchain/tests/tst_contract_compliance.py libtbx/langchain/tests/tst_copies_tracking.py libtbx/langchain/tests/tst_decision_flow.py libtbx/langchain/tests/tst_diagnosed_failure_stop.py libtbx/langchain/tests/tst_directive_extractor.py libtbx/langchain/tests/tst_directive_validator.py libtbx/langchain/tests/tst_directives_integration.py libtbx/langchain/tests/tst_display_data_model.py libtbx/langchain/tests/tst_docs_tools.py libtbx/langchain/tests/tst_dry_run.py libtbx/langchain/tests/tst_error_analyzer.py libtbx/langchain/tests/tst_error_classifier.py libtbx/langchain/tests/tst_event_formatter_file_categories.py libtbx/langchain/tests/tst_event_system.py libtbx/langchain/tests/tst_explanation_prompts.py libtbx/langchain/tests/tst_fabricated_stop_condition.py libtbx/langchain/tests/tst_file_categorization.py libtbx/langchain/tests/tst_file_utils.py libtbx/langchain/tests/tst_fix_verification.py libtbx/langchain/tests/tst_gate_evaluator.py libtbx/langchain/tests/tst_halfmap_sigmaa_inventory.py libtbx/langchain/tests/tst_hardcoded_cleanup.py libtbx/langchain/tests/tst_history_analysis.py libtbx/langchain/tests/tst_hypothesis_evaluator.py libtbx/langchain/tests/tst_integration.py libtbx/langchain/tests/tst_intent_classifier.py libtbx/langchain/tests/tst_langchain_tools.py libtbx/langchain/tests/tst_log_extractor.py libtbx/langchain/tests/tst_metric_patterns.py libtbx/langchain/tests/tst_metrics_analyzer.py libtbx/langchain/tests/tst_mtz_crosscheck.py libtbx/langchain/tests/tst_mtz_phases_session_blocking.py libtbx/langchain/tests/tst_n_bugs.py libtbx/langchain/tests/tst_new_programs.py libtbx/langchain/tests/tst_old_client_compat.py libtbx/langchain/tests/tst_pattern_manager.py libtbx/langchain/tests/tst_perceive_stop_checks.py libtbx/langchain/tests/tst_phase0_static_audit.py libtbx/langchain/tests/tst_phase1_contract_gaps.py libtbx/langchain/tests/tst_phase2_path_consistency.py libtbx/langchain/tests/tst_phase3_bug5.py libtbx/langchain/tests/tst_phase3_serialization_symmetry.py libtbx/langchain/tests/tst_phase4_history_flags.py libtbx/langchain/tests/tst_phase5_error_classification.py libtbx/langchain/tests/tst_phase6_category_consumer.py libtbx/langchain/tests/tst_phase7_routing_simulation.py libtbx/langchain/tests/tst_phase8_command_building.py libtbx/langchain/tests/tst_phase9_llm_perturbation.py libtbx/langchain/tests/tst_phaser_multimodel.py libtbx/langchain/tests/tst_phil_validation.py libtbx/langchain/tests/tst_plan_generator.py libtbx/langchain/tests/tst_plan_schema.py libtbx/langchain/tests/tst_program_registration.py libtbx/langchain/tests/tst_sanity_checker.py libtbx/langchain/tests/tst_scenario_tracer.py libtbx/langchain/tests/tst_session_directives.py libtbx/langchain/tests/tst_session_summary.py libtbx/langchain/tests/tst_session_tools.py libtbx/langchain/tests/tst_shared_code_imports.py libtbx/langchain/tests/tst_silent_stop_abort_messages.py libtbx/langchain/tests/tst_state_serialization.py libtbx/langchain/tests/tst_stop_condition_fix.py libtbx/langchain/tests/tst_stop_feedback_api_plan_command.py libtbx/langchain/tests/tst_stop_reason_codes.py libtbx/langchain/tests/tst_stop_reason_prompt.py libtbx/langchain/tests/tst_strategy_memory.py libtbx/langchain/tests/tst_structure_model.py libtbx/langchain/tests/tst_summary_display.py libtbx/langchain/tests/tst_template.py libtbx/langchain/tests/tst_thinking_agent.py libtbx/langchain/tests/tst_thinking_defense.py libtbx/langchain/tests/tst_transport.py libtbx/langchain/tests/tst_utils.py libtbx/langchain/tests/tst_v112_13_fixes.py libtbx/langchain/tests/tst_validate_file_overrides.py libtbx/langchain/tests/tst_validation_history.py libtbx/langchain/tests/tst_workflow_complete_stop.py libtbx/langchain/tests/tst_workflow_state.py libtbx/langchain/tests/tst_yaml_config.py libtbx/langchain/tests/tst_yaml_tools.py libtbx/phil/ libtbx/phil/tst.py libtbx/phil/tst_experimental.py libtbx/phil/tst_interface.py libtbx/phil/tst_tokenizer.py libtbx/queuing_system_utils/ libtbx/queuing_system_utils/tst.py sent 2,442,731 bytes received 2,383 bytes 4,890,228.00 bytes/sec total size is 2,432,426 speedup is 0.99 building file list ... done mmtbx/atomic_environment_vectors/ mmtbx/atomic_environment_vectors/tst.py mmtbx/building/ mmtbx/building/tst_extend_sidechains.py mmtbx/building/tst_extend_sidechains_2.py mmtbx/building/ligands/ mmtbx/building/ligands/tst_00.py mmtbx/building/ligands/tst_00_mmtbx_building_ligands.map mmtbx/bulk_solvent/ mmtbx/bulk_solvent/tst_aniso_scaler.py mmtbx/bulk_solvent/tst_bulk_solvent_and_scaling.py mmtbx/bulk_solvent/tst_fit_kexpb_to_ktotal.py mmtbx/bulk_solvent/tst_flat_nonuniform.py mmtbx/bulk_solvent/tst_kb_sol_u_star_fd.py mmtbx/bulk_solvent/tst_mosaic.py mmtbx/bulk_solvent/tst_scaler.py mmtbx/chemical_components/ mmtbx/chemical_components/tst.py mmtbx/conformation_dependent_library/ mmtbx/conformation_dependent_library/tst_cdl.py mmtbx/conformation_dependent_library/tst_cdl_esd.py mmtbx/conformation_dependent_library/tst_cdl_nucleotides.py mmtbx/conformation_dependent_library/tst_cis_c_n_ca.py mmtbx/conformation_dependent_library/tst_enol_peptide.py mmtbx/conformation_dependent_library/tst_hpdl.py mmtbx/conformation_dependent_library/tst_mcl_01.py mmtbx/conformation_dependent_library/tst_mcl_02.py mmtbx/conformation_dependent_library/tst_mcl_03.py mmtbx/conformation_dependent_library/tst_multi_residue_rna.py mmtbx/conformation_dependent_library/tst_mutli_residue.py mmtbx/conformation_dependent_library/tst_omega_cdl.py mmtbx/conformation_dependent_library/tst_pH_mechanism.py mmtbx/conformation_dependent_library/tst_poly_ca_multi_residue.py mmtbx/conformation_dependent_library/tst_rdl.py mmtbx/conformation_dependent_library/tst_rna_dna_fragments.py mmtbx/density_modification/ mmtbx/density_modification/tst_density_modification.py mmtbx/disorder/ mmtbx/disorder/tst.py mmtbx/disorder/tst_analyze_model.py mmtbx/disorder/tst_backbone.py mmtbx/dynamics/ mmtbx/dynamics/tst_cartesian_dynamics.py mmtbx/dynamics/tst_sa.py mmtbx/geometry/ mmtbx/geometry/tests/ mmtbx/geometry/tests/tst_altloc.py mmtbx/geometry/tests/tst_asa.py mmtbx/geometry/tests/tst_clash.py mmtbx/geometry/tests/tst_indexing.py mmtbx/geometry/tests/tst_shared_types.py mmtbx/geometry/tests/tst_sphere_surface_sampling.py mmtbx/geometry/tests/tst_topology.py mmtbx/geometry_restraints/ mmtbx/geometry_restraints/tst_c_beta_restraints.py mmtbx/geometry_restraints/tst_geo_file_parsing.py mmtbx/geometry_restraints/tst_manager.py mmtbx/geometry_restraints/tst_ramachandran.py mmtbx/geometry_restraints/tst_reference_coordinate.py mmtbx/geometry_restraints/tst_reference_coordinate2.py mmtbx/geometry_restraints/torsion_restraints/ mmtbx/geometry_restraints/torsion_restraints/tst_reference_model.py mmtbx/geometry_restraints/torsion_restraints/tst_reference_model_ligands.py mmtbx/geometry_restraints/torsion_restraints/tst_torsion_ncs.py mmtbx/hydrogens/ mmtbx/hydrogens/tst.py mmtbx/hydrogens/tst_add_hydrogen.py mmtbx/hydrogens/tst_add_hydrogen_0.py mmtbx/hydrogens/tst_add_hydrogen_1.py mmtbx/hydrogens/tst_add_hydrogen_2.py mmtbx/hydrogens/tst_add_hydrogen_3.py mmtbx/hydrogens/tst_add_hydrogen_4.py mmtbx/hydrogens/tst_add_hydrogen_5.py mmtbx/hydrogens/tst_add_hydrogen_6.py mmtbx/hydrogens/tst_add_hydrogen_7.py mmtbx/hydrogens/tst_add_hydrogen_8.py mmtbx/hydrogens/tst_add_hydrogen_9.py mmtbx/hydrogens/tst_add_hydrogen_time.py mmtbx/hydrogens/tst_connectivity.py mmtbx/hydrogens/tst_parameterization_1.py mmtbx/hydrogens/tst_parameterization_2.py mmtbx/hydrogens/tst_parameterization_3.py mmtbx/hydrogens/tst_parameterization_4.py mmtbx/hydrogens/tst_parameterization_5.py mmtbx/hydrogens/tst_parameterization_6.py mmtbx/hydrogens/tst_parameterization_7.py mmtbx/hydrogens/tst_parameterization_8.py mmtbx/hydrogens/tst_parameterization_9.py mmtbx/hydrogens/tst_riding_coefficients.py mmtbx/hydrogens/tst_riding_fd_1.py mmtbx/hydrogens/tst_riding_fd_2.py mmtbx/hydrogens/tst_riding_fd_3.py mmtbx/hydrogens/tst_riding_fd_4.py mmtbx/hydrogens/tst_riding_fd_5.py mmtbx/hydrogens/tst_riding_manager.py mmtbx/hydrogens/tst_riding_minimize.py mmtbx/hydrogens/tst_validate_H.py mmtbx/ias/ mmtbx/ias/tst_ias.py mmtbx/idealized_aa_residues/ mmtbx/idealized_aa_residues/tst.py mmtbx/ions/ mmtbx/ions/tst_environment.py mmtbx/ions/tst_geometries.py mmtbx/ions/tst_parameters.py mmtbx/ions/tst_pick_approx_zn.py mmtbx/ions/tst_pick_ca.py mmtbx/ions/tst_pick_ca_svm.py mmtbx/ions/tst_pick_k.py mmtbx/ions/tst_pick_mg.py mmtbx/ions/tst_pickle.py mmtbx/ions/tst_symmetry_axis.py mmtbx/ions/tst_utils.py mmtbx/ions/tst_validate_ca.py mmtbx/ions/tst_validate_mg.py mmtbx/ions/svm/ mmtbx/ions/svm/tst_classifier_01.py mmtbx/ions/svm/tst_classifier_02.py mmtbx/ligands/ mmtbx/ligands/tst_electron_scripting.py mmtbx/ligands/tst_ready_set_utils.py mmtbx/ligands/tst_xtal_screens.py mmtbx/maps/ mmtbx/maps/tst_composite_omit_map.py mmtbx/maps/tst_composite_omit_map_2.py mmtbx/maps/tst_composite_omit_map_3.py mmtbx/maps/tst_correlation.py mmtbx/maps/tst_map_model_cc_and_vals_per_atom_xtal.py mmtbx/masks/ mmtbx/masks/tst_asu_mask.py mmtbx/masks/tst_mask.cpp mmtbx/masks/tst_masks.py mmtbx/max_lik/ mmtbx/max_lik/tst_max_lik.py mmtbx/max_lik/tst_maxlik.py mmtbx/monomer_library/ mmtbx/monomer_library/tst_all_cif_files.py mmtbx/monomer_library/tst_carbo_linking.py mmtbx/monomer_library/tst_chg.py mmtbx/monomer_library/tst_cif_triage.py mmtbx/monomer_library/tst_cif_types.py mmtbx/monomer_library/tst_correct_hydrogens.py mmtbx/monomer_library/tst_deuterium_terminii.py mmtbx/monomer_library/tst_geo_reduce_for_tardy.py mmtbx/monomer_library/tst_glyco_coordination.py mmtbx/monomer_library/tst_glyco_hand.py mmtbx/monomer_library/tst_idealized_aa.py mmtbx/monomer_library/tst_iron_sulfur_clusters.py mmtbx/monomer_library/tst_linking.py mmtbx/monomer_library/tst_metal_coordination.py mmtbx/monomer_library/tst_motif.py mmtbx/monomer_library/tst_neutron_distance.py mmtbx/monomer_library/tst_paral_geo.py mmtbx/monomer_library/tst_pdb_interpretation.py mmtbx/monomer_library/tst_pdb_interpretation_2.py mmtbx/monomer_library/tst_pdb_interpretation_3.py mmtbx/monomer_library/tst_pdb_interpretation_4.py mmtbx/monomer_library/tst_pdb_interpretation_5.py mmtbx/monomer_library/tst_pdb_interpretation_ncs_processing.py mmtbx/monomer_library/tst_protein_interpretation.py mmtbx/monomer_library/tst_rna_dna_interpretation.py mmtbx/monomer_library/tst_rna_sugar_pucker_analysis.py mmtbx/monomer_library/tst_rotamer_utils.py mmtbx/monomer_library/tst_selection.py mmtbx/monomer_library/tst_server.py mmtbx/monomer_library/tst_superpose_ideal.py mmtbx/monomer_library/tst_tyr_from_gly_and_bnz.py mmtbx/monomer_library/tst_user_supplied_library.py mmtbx/nci/ mmtbx/nci/tst_hbond.py mmtbx/pair_interaction/ mmtbx/pair_interaction/tst_00.py mmtbx/pair_interaction/tst_01.py mmtbx/pair_interaction/tst_02.py mmtbx/pair_interaction/tst_03.py mmtbx/pair_interaction/tst_04.py mmtbx/pair_interaction/tst_05.py mmtbx/polygon/ mmtbx/polygon/tst.py mmtbx/polygon/tst_gui.py mmtbx/polygon/tst_polygon_data.py mmtbx/probe/ mmtbx/probe/tst_mmtbx_probe_ext.py mmtbx/probe/tst_probe.cpp mmtbx/real_space/ mmtbx/real_space/tst.py mmtbx/reduce/ mmtbx/reduce/tst_mmtbx_reduce_ext.py mmtbx/refinement/ mmtbx/refinement/tst_anomalous_scatterer_groups.py mmtbx/refinement/tst_fit_rotamers.py mmtbx/refinement/tst_group.py mmtbx/refinement/tst_group_2.py mmtbx/refinement/tst_misc.py mmtbx/refinement/tst_occupancy_selections.py mmtbx/refinement/tst_real_space_simple.py mmtbx/refinement/tst_refinement_flags.py mmtbx/refinement/tst_rigid_body.py mmtbx/refinement/tst_rigid_body_groups_from_pdb_chains.py mmtbx/refinement/tst_select_best_starting_model.py mmtbx/refinement/real_space/ mmtbx/refinement/real_space/tst_aa_residue_axes_and_clusters.py mmtbx/refinement/real_space/tst_fit_residue_0.py mmtbx/refinement/real_space/tst_fit_residue_0H.py mmtbx/refinement/real_space/tst_fit_residue_1.py mmtbx/refinement/real_space/tst_fit_residue_1H.py mmtbx/refinement/real_space/tst_fit_residue_2.py mmtbx/refinement/real_space/tst_fit_residue_3.py mmtbx/refinement/real_space/tst_fit_residue_4.py mmtbx/refinement/real_space/tst_fit_residue_5.py mmtbx/refinement/real_space/tst_fit_residue_6.py mmtbx/refinement/real_space/tst_fit_residue_7.py mmtbx/refinement/real_space/tst_fit_residue_full_sampling.py mmtbx/refinement/real_space/tst_fit_residues_1.py mmtbx/refinement/real_space/tst_fit_residues_1H.py mmtbx/refinement/real_space/tst_fit_residues_2.py mmtbx/refinement/real_space/tst_fit_residues_3.py mmtbx/refinement/real_space/tst_fit_residues_4.py mmtbx/refinement/real_space/tst_fit_residues_5.py mmtbx/refinement/real_space/tst_fit_residues_6.py mmtbx/refinement/real_space/tst_fit_residues_selection.py mmtbx/refinement/real_space/tst_fit_water.py mmtbx/refinement/real_space/tst_individual_sites_1.py mmtbx/refinement/real_space/tst_individual_sites_2.py mmtbx/refinement/real_space/tst_individual_sites_3.py mmtbx/refinement/real_space/tst_monitor.py mmtbx/refinement/real_space/tst_rigid_body.py mmtbx/refinement/real_space/tst_weight.py mmtbx/regression/tst_add_arrows_on_plot.py mmtbx/regression/tst_add_h_to_water.py mmtbx/regression/tst_adp_restraints.py mmtbx/regression/tst_alignment.py mmtbx/regression/tst_altloc_chain_break.py mmtbx/regression/tst_altloc_remediate.py mmtbx/regression/tst_angle.py mmtbx/regression/tst_anomalous_substructure.py mmtbx/regression/tst_apply_cif_restraints.py mmtbx/regression/tst_arginine_geometry.py mmtbx/regression/tst_cc_star.py mmtbx/regression/tst_chain_comparison.py mmtbx/regression/tst_chain_comparison_cif.py mmtbx/regression/tst_cif_as_mtz_wavelengths.py mmtbx/regression/tst_cis_trans_peptide_link.py mmtbx/regression/tst_clashes.py mmtbx/regression/tst_command_line_input.py mmtbx/regression/tst_domains_from_pae.py mmtbx/regression/tst_domains_from_pae_cif.py mmtbx/regression/tst_dynamics_cli.py mmtbx/regression/tst_examples.py mmtbx/regression/tst_find_ncs.py mmtbx/regression/tst_find_ss_structure.py mmtbx/regression/tst_find_ss_structure_cif.py mmtbx/regression/tst_flipping_his.py mmtbx/regression/tst_fmodel.py mmtbx/regression/tst_fmodel_2.py mmtbx/regression/tst_fmodel_and_dm.py mmtbx/regression/tst_fmodel_fd.py mmtbx/regression/tst_fmodel_misc.py mmtbx/regression/tst_fmodel_no_cryst1.py mmtbx/regression/tst_geo_min_restraints_phil.py mmtbx/regression/tst_geometry_minimization.py mmtbx/regression/tst_helix_sheet_recs_as_pdb_files.py mmtbx/regression/tst_holton_geometry_validation.py mmtbx/regression/tst_isomorphous_difference_misc.py mmtbx/regression/tst_ligand_ncs.py mmtbx/regression/tst_loop_closure.py mmtbx/regression/tst_lrv.py mmtbx/regression/tst_map_model_cc.py mmtbx/regression/tst_map_type_parser.py mmtbx/regression/tst_maps_misc.py mmtbx/regression/tst_metal_link_1.py mmtbx/regression/tst_minimize_chain.py mmtbx/regression/tst_ml_estimate.py mmtbx/regression/tst_mmtbx_refinement_wrappers.py mmtbx/regression/tst_mmtbx_refinement_wrappers_1.py mmtbx/regression/tst_mmtbx_refinement_wrappers_2.py mmtbx/regression/tst_model_map.py mmtbx/regression/tst_model_vs_map.py mmtbx/regression/tst_model_vs_sequence.py mmtbx/regression/tst_models_to_from_chains.py mmtbx/regression/tst_msa.py mmtbx/regression/tst_mtz2map.py mmtbx/regression/tst_multi_residue_class.py mmtbx/regression/tst_origin_ids.py mmtbx/regression/tst_pdbtools.py mmtbx/regression/tst_polder.py mmtbx/regression/tst_polder_1.py mmtbx/regression/tst_polder_2.py mmtbx/regression/tst_polder_3.py mmtbx/regression/tst_polder_4.py mmtbx/regression/tst_polder_box.py mmtbx/regression/tst_polder_ccs.py mmtbx/regression/tst_probe.py mmtbx/regression/tst_process_predicted_model.py mmtbx/regression/tst_process_predicted_model_cif.py mmtbx/regression/tst_prune_model.py mmtbx/regression/tst_psi_phi_extraction.py mmtbx/regression/tst_rank_scale_map.py mmtbx/regression/tst_rdkit_utils_fragmentation.py mmtbx/regression/tst_real_space_correlation.py mmtbx/regression/tst_reduce.py mmtbx/regression/tst_reduce_cryoem_resolution.py mmtbx/regression/tst_reduce_timeout.py mmtbx/regression/tst_refine_anomalous_substructure.py mmtbx/regression/tst_regularize_from_pdb.py mmtbx/regression/tst_regularize_from_pdb_cif.py mmtbx/regression/tst_ribbons.py mmtbx/regression/tst_rigid_bond_test.py mmtbx/regression/tst_ringer.py mmtbx/regression/tst_sampled_model_density.py mmtbx/regression/tst_scattering_table.py mmtbx/regression/tst_scattering_type_registry.py mmtbx/regression/tst_schrodinger_interface.py mmtbx/regression/tst_sequence_validation.py mmtbx/regression/tst_sort_hetatms.py mmtbx/regression/tst_special_term_at_end.py mmtbx/regression/tst_statistics_output.py mmtbx/regression/tst_superpose.py mmtbx/regression/tst_table_one.py mmtbx/regression/tst_utils.py mmtbx/regression/tst_validate_ligands.py mmtbx/regression/tst_validate_ligands_2.py mmtbx/regression/tst_validation_summary.py mmtbx/regression/discamb/ mmtbx/regression/discamb/tst_IAM_discamb_vs_cctbx_1.py mmtbx/regression/discamb/tst_IAM_discamb_vs_cctbx_2.py mmtbx/regression/discamb/tst_IAM_discamb_vs_cctbx_3.py mmtbx/regression/discamb/tst_IAM_discamb_vs_cctbx_4.py mmtbx/regression/discamb/tst_IAM_discamb_vs_cctbx_5.py mmtbx/regression/discamb/tst_IAM_gradients_1.py mmtbx/regression/discamb/tst_fmodel_fd_discamb.py mmtbx/regression/discamb/tst_fmodel_fd_discamb_taam.py mmtbx/regression/discamb/tst_fmodel_fd_discamb_taam_tyr.py mmtbx/regression/discamb/tst_olex2_vs_pydiscamb_TAAM_1.py mmtbx/regression/discamb/tst_olex2_vs_pydiscamb_TAAM_2.py mmtbx/regression/fix_cablam/ mmtbx/regression/fix_cablam/tst_basic_cl_operations.py mmtbx/regression/fix_cablam/tst_insertion_codes.py mmtbx/regression/fix_cablam/tst_one_resid_rotation.py mmtbx/regression/fix_cablam/tst_single_outliers_surroundings.py mmtbx/regression/model/ mmtbx/regression/model/tst_model.py mmtbx/regression/model/tst_model_2.py mmtbx/regression/model/tst_model_biomt_mtrix.py mmtbx/regression/model/tst_model_biomt_mtrix_2.py mmtbx/regression/model/tst_model_cart_ref_restraints.py mmtbx/regression/model/tst_model_dedeuterate.py mmtbx/regression/model/tst_model_get_vdw_radii.py mmtbx/regression/model/tst_model_merge.py mmtbx/regression/model/tst_model_mtrix.py mmtbx/regression/model/tst_model_ncs.py mmtbx/regression/model/tst_model_neutralize_scatterers.py mmtbx/regression/model/tst_model_pairs_within.py mmtbx/regression/model/tst_model_ramachandran.py mmtbx/regression/model/tst_model_remove_alternative_conformations.py mmtbx/regression/model/tst_model_set_hydrogen_bond_length.py mmtbx/regression/model/tst_model_symmetry.py mmtbx/regression/model/tst_model_tors_ref_restraints.py mmtbx/regression/model/tst_model_utils_merge_models.py mmtbx/regression/model/tst_restrain_selection_to_self_or_neighbors.py mmtbx/regression/model_idealization/ mmtbx/regression/model_idealization/tst_ext_map_01.py mmtbx/regression/model_idealization/tst_ligands.py mmtbx/regression/model_idealization/tst_nomap_01.py mmtbx/regression/model_idealization/tst_nomap_02.py mmtbx/regression/model_idealization/tst_nomap_03.py mmtbx/regression/model_idealization/tst_nomap_04.py mmtbx/regression/model_idealization/tst_with_mtz.py mmtbx/regression/model_idealization/tst_withmap_01.py mmtbx/regression/model_idealization/tst_withmap_02.py mmtbx/regression/model_idealization/tst_withmap_03.py mmtbx/regression/model_idealization/tst_withmap_04.py mmtbx/regression/model_idealization/tst_withmap_05.py mmtbx/regression/model_idealization/tst_withmap_06.py mmtbx/regression/mtz/ mmtbx/regression/mtz/tst_xtriage_fmodel.mtz mmtbx/regression/ncs/ mmtbx/regression/ncs/tst_geometry_minimization_ncs_constraints.py mmtbx/regression/ncs/tst_minimization_ncs_constraints.py mmtbx/regression/ncs/tst_minimization_ncs_constraints2.py mmtbx/regression/ncs/tst_minimization_ncs_constraints3.py mmtbx/regression/ncs/tst_minimization_ncs_constraints_real_space.py mmtbx/regression/ncs/tst_ncs_restraints_group_list.py mmtbx/regression/ncs/tst_ncs_search.py mmtbx/regression/ncs/tst_ncs_search_flips.py mmtbx/regression/ncs/tst_ncs_utils.py mmtbx/regression/ncs/tst_restraints.py mmtbx/regression/pdb_interpretation/ mmtbx/regression/pdb_interpretation/tst_custom_nb_sym_excl.py mmtbx/regression/pdb_interpretation/tst_edits.py mmtbx/regression/pdb_interpretation/tst_edits_actions.py mmtbx/regression/pdb_interpretation/tst_tardy_geo.py mmtbx/regression/pdb_interpretation/tst_using_ncs_1.py mmtbx/regression/pdb_interpretation/tst_using_ncs_2.py mmtbx/regression/real_space_refine_chain/ mmtbx/regression/real_space_refine_chain/tst_00.py mmtbx/regression/real_space_refine_chain/tst_01.py mmtbx/regression/tls/ mmtbx/regression/tls/tst_formula_t_S_10_vs_11_2igd.py mmtbx/regression/tls/tst_formula_t_S_10_vs_11_4muy.py mmtbx/regression/tls/tst_get_t_scheme.py mmtbx/regression/tls/tst_tls.py mmtbx/regression/tls/tst_tls_analysis.py mmtbx/regression/tls/tst_tls_as_xyz.py mmtbx/regression/tls/tst_tls_optimise_amplitudes.py mmtbx/regression/tls/tst_tls_refinement_fft.py mmtbx/regression/tls/tst_tls_utils.py mmtbx/regression/tls/tst_u_tls_vs_u_ens_00.py mmtbx/regression/tls/tst_u_tls_vs_u_ens_01.py mmtbx/regression/tls/tst_u_tls_vs_u_ens_02.py mmtbx/regression/tls/tst_u_tls_vs_u_ens_03.py mmtbx/regression/tls/tst_u_tls_vs_u_ens_04.py mmtbx/regression/tncs/ mmtbx/regression/tncs/tst_epsfac_and_radius.py mmtbx/regression/tncs/tst_fd.py mmtbx/regression/tncs/tst_moments.py mmtbx/regression/tncs/tst_pair.py mmtbx/ringer/ mmtbx/ringer/tst_em_rscc.py mmtbx/ringer/tst_emringer.py mmtbx/rotamer/ mmtbx/rotamer/tst_geostd_vs_sidechain_angles_props.py mmtbx/rotamer/tst_rotamer_eval.py mmtbx/rsr/ mmtbx/rsr/tst.py mmtbx/scaling/ mmtbx/scaling/tst_absences.py mmtbx/scaling/tst_bayesian_estimator.py mmtbx/scaling/tst_massage_data.py mmtbx/scaling/tst_mean_f_rms_f.py mmtbx/scaling/tst_outlier.py mmtbx/scaling/tst_plan_sad_experiment.py mmtbx/scaling/tst_scaling.py mmtbx/scaling/tst_sigmaa.py mmtbx/scaling/tst_xtriage.py mmtbx/scaling/tst_xtriage_twin_analyses.py mmtbx/secondary_structure/ mmtbx/secondary_structure/tst.py mmtbx/secondary_structure/tst_insertion_codes.py mmtbx/secondary_structure/tst_segid.py mmtbx/secondary_structure/build/ mmtbx/secondary_structure/build/tst_1.py mmtbx/secondary_structure/build/tst_2.py mmtbx/secondary_structure/build/tst_3.py mmtbx/secondary_structure/build/tst_io.py mmtbx/secondary_structure/build/tst_ss_id_ncs.py mmtbx/utils/ mmtbx/utils/tst_switch_rotamers.py mmtbx/validation/ mmtbx/validation/regression/ mmtbx/validation/regression/tst_cablam.py mmtbx/validation/regression/tst_cablam_2.py mmtbx/validation/regression/tst_cbetadev.py mmtbx/validation/regression/tst_cbetadev_02.py mmtbx/validation/regression/tst_chiral_validation.py mmtbx/validation/regression/tst_clashscore.py mmtbx/validation/regression/tst_clashscore_2.py mmtbx/validation/regression/tst_do_flips_clashscore.py mmtbx/validation/regression/tst_experimental.py mmtbx/validation/regression/tst_find_region_max_value.py mmtbx/validation/regression/tst_hydrogen_addition_clashscore.py mmtbx/validation/regression/tst_keep_hydrogens.py mmtbx/validation/regression/tst_model_properties.py mmtbx/validation/regression/tst_molprobity_1.py mmtbx/validation/regression/tst_molprobity_2.py mmtbx/validation/regression/tst_molprobity_3.py mmtbx/validation/regression/tst_molprobity_4.py mmtbx/validation/regression/tst_molprobity_5.py mmtbx/validation/regression/tst_molprobity_arguments.py mmtbx/validation/regression/tst_mp_geo.py mmtbx/validation/regression/tst_mp_geo_chiral_volume_cases.py mmtbx/validation/regression/tst_mp_geo_endtoend.py mmtbx/validation/regression/tst_mp_validate_bonds.py mmtbx/validation/regression/tst_omegalyze.py mmtbx/validation/regression/tst_rama_z_01.py mmtbx/validation/regression/tst_rama_z_02.py mmtbx/validation/regression/tst_ramalyze.py mmtbx/validation/regression/tst_ramalyze2.py mmtbx/validation/regression/tst_ramalyze_rare.py mmtbx/validation/regression/tst_restraints.py mmtbx/validation/regression/tst_rna_validate.py mmtbx/validation/regression/tst_rotalyze.py mmtbx/validation/regression/tst_suitename.py mmtbx/validation/regression/tst_symmetry_SS.py mmtbx/validation/regression/tst_undowser.py mmtbx/validation/regression/tst_undowser2.py mmtbx/validation/regression/tst_waters.py mmtbx/wwpdb/ mmtbx/wwpdb/tst_rcsb_entry_request.py mmtbx/wwpdb/tst_rcsb_web_services.py sent 7,764,042 bytes received 8,514 bytes 5,181,704.00 bytes/sec total size is 7,731,965 speedup is 0.99 building file list ... done omptbx/ omptbx/tst.py sent 1,313 bytes received 38 bytes 2,702.00 bytes/sec total size is 1,175 speedup is 0.87 building file list ... done rstbx/bpcx/ rstbx/bpcx/detector_model/ rstbx/bpcx/detector_model/tst_detector_model.py rstbx/cftbx/ rstbx/cftbx/tst_coordinate_frame_converter.py rstbx/diffraction/ rstbx/diffraction/tst_ewald_sphere.py rstbx/diffraction/tst_partial_derivatives.py rstbx/diffraction/tst_predict.py rstbx/diffraction/fastbragg/ rstbx/diffraction/fastbragg/tst_bragg_minimal.py rstbx/diffraction/fastbragg/tst_utils_clustering.py rstbx/dps_core/ rstbx/dps_core/tst_iotbx_converter.py rstbx/indexing/ rstbx/indexing/tst_auto_monoscan.py rstbx/indexing/tst_dataset1.py rstbx/simage/ rstbx/simage/tst.py rstbx/simulation/ rstbx/simulation/tst_xfel1_simple.py rstbx/sublattice_support/ rstbx/sublattice_support/tst_sublattice.py rstbx/viewer/ rstbx/viewer/tst.py sent 181,045 bytes received 311 bytes 362,712.00 bytes/sec total size is 179,407 speedup is 0.99 building file list ... done scitbx/array_family/ scitbx/array_family/tst_accessors.cpp scitbx/array_family/tst_af_1.cpp scitbx/array_family/tst_af_2.cpp scitbx/array_family/tst_af_3.cpp scitbx/array_family/tst_af_4.cpp scitbx/array_family/tst_af_5.cpp scitbx/array_family/tst_af_helpers.cpp scitbx/array_family/tst_mat3.cpp scitbx/array_family/tst_optional_copy.cpp scitbx/array_family/tst_rectangular_full_packed.cpp scitbx/array_family/tst_ref_matrix_facet.cpp scitbx/array_family/tst_sym_mat3.cpp scitbx/array_family/tst_unsigned_float_arithmetic.cpp scitbx/array_family/tst_vec3.cpp scitbx/array_family/boost_python/ scitbx/array_family/boost_python/tst_cost_of_m_handle_in_af_shared.py scitbx/array_family/boost_python/tst_flex.py scitbx/array_family/boost_python/tst_flex_argument_passing.py scitbx/array_family/boost_python/tst_integer_offsets_vs_pointers.py scitbx/array_family/boost_python/tst_numpy_bridge.py scitbx/array_family/boost_python/tst_shared.py scitbx/array_family/boost_python/tst_smart_selection.py scitbx/dtmin/ scitbx/dtmin/regression/ scitbx/dtmin/regression/tst_dtmin_basic.py scitbx/dtmin/regression/tst_dtmin_booth.py scitbx/dtmin/regression/tst_dtmin_twisted.py scitbx/error/ scitbx/error/tst_error.cpp scitbx/error/tst_error.py scitbx/fftpack/ scitbx/fftpack/boost_python/ scitbx/fftpack/boost_python/tst_fftpack.py scitbx/fftpack/timing/ scitbx/fftpack/timing/tst3d.cpp scitbx/glmtbx/ scitbx/glmtbx/tests/ scitbx/glmtbx/tests/tst.py scitbx/graph/ scitbx/graph/tst_rigidity.py scitbx/graph/tst_tardy_tree.py scitbx/graph/tst_tardy_tree_find_paths.py scitbx/graph/tst_utils.py scitbx/graphics_utils/ scitbx/graphics_utils/tst.py scitbx/iso_surface/ scitbx/iso_surface/tst_iso_surface.m scitbx/iso_surface/tst_iso_surface.py scitbx/lbfgs/ scitbx/lbfgs/tst_curvatures.py scitbx/lbfgs/tst_ext.py scitbx/lbfgs/tst_func_free_line_search.py scitbx/lbfgs/tst_lbfgs.cpp scitbx/lbfgs/tst_lbfgs_fem.py scitbx/lbfgs/tst_mpi_split_evaluator.py scitbx/lbfgsb/ scitbx/lbfgsb/boost_python/ scitbx/lbfgsb/boost_python/tst_fit_cdf.py scitbx/lbfgsb/boost_python/tst_lbfgsb.py scitbx/linalg/ scitbx/linalg/tests/ scitbx/linalg/tests/tst_cholesky.py scitbx/linalg/tests/tst_eigensystem.py scitbx/linalg/tests/tst_lapack_dsyev.py scitbx/linalg/tests/tst_lapack_svd.py scitbx/linalg/tests/tst_matrix.py scitbx/linalg/tests/tst_svd.py scitbx/lstbx/ scitbx/lstbx/tests/ scitbx/lstbx/tests/tst_normal_equations.nb scitbx/lstbx/tests/tst_normal_equations.py scitbx/math/ scitbx/math/tst_2d_zernike.py scitbx/math/tst_bessel_zeros.py scitbx/math/tst_multivariate_moments.py scitbx/math/tst_so3_lie_algebra.py scitbx/math/tst_undirected_graph.py scitbx/math/tst_zernike.py scitbx/math/tst_zernike_mom.py scitbx/math/tests/ scitbx/math/tests/tst.cpp scitbx/math/tests/tst_angle_derivative.py scitbx/math/tests/tst_bessel.py scitbx/math/tests/tst_clustering.py scitbx/math/tests/tst_cubic_equation.py scitbx/math/tests/tst_curve_fitting.py scitbx/math/tests/tst_dmatrix.py scitbx/math/tests/tst_error_propagation_matrix_inverse.py scitbx/math/tests/tst_euler_angles.py scitbx/math/tests/tst_exp_functions.py scitbx/math/tests/tst_fit_peak.py scitbx/math/tests/tst_fit_quadratic_function.py scitbx/math/tests/tst_g_function.py scitbx/math/tests/tst_gaussian.py scitbx/math/tests/tst_gaussian_fit_1d_analytical.py scitbx/math/tests/tst_gcd.py scitbx/math/tests/tst_halton.py scitbx/math/tests/tst_line_search.py scitbx/math/tests/tst_math.py scitbx/math/tests/tst_minimum_covering_ellipsoid.py scitbx/math/tests/tst_orthonormal_basis.py scitbx/math/tests/tst_periodogram.py scitbx/math/tests/tst_quadrature.py scitbx/math/tests/tst_r3_rotation.py scitbx/math/tests/tst_resample.py scitbx/math/tests/tst_similarity_indices.py scitbx/math/tests/tst_superpose.py scitbx/math/tests/tst_tetrahedron.py scitbx/math/tests/tst_uniform_rotation_matrix.py scitbx/math/tests/tst_weighted_correlation.py scitbx/matrix/ scitbx/matrix/tests/ scitbx/matrix/tests/tst_cholesky.cpp scitbx/matrix/tests/tst_givens.cpp scitbx/matrix/tests/tst_householder.cpp scitbx/matrix/tests/tst_householder.nb scitbx/matrix/tests/tst_householder.py scitbx/matrix/tests/tst_row_echelon.py scitbx/matrix/tests/tst_svd.cpp scitbx/matrix/tests/tst_svd.nb scitbx/matrix/tests/tst_svd_accuracy.nb scitbx/minpack/ scitbx/minpack/tst.py scitbx/python_utils/ scitbx/python_utils/tst_graph.py scitbx/python_utils/tst_random_transform.py scitbx/python_utils/tst_robust.py scitbx/random/ scitbx/random/tests/ scitbx/random/tests/tst_random.py scitbx/rigid_body/ scitbx/rigid_body/tst.py scitbx/rigid_body/essence/ scitbx/rigid_body/essence/tst_basic.py scitbx/rigid_body/essence/tst_energy_plots.py scitbx/rigid_body/essence/tst_tardy.py scitbx/rigid_body/proto/ scitbx/rigid_body/proto/tst_featherstone.py scitbx/rigid_body/proto/tst_free_motion.py scitbx/rigid_body/proto/tst_free_motion_hard.py scitbx/rigid_body/proto/tst_joint_lib.py scitbx/rigid_body/proto/tst_molecules.py scitbx/rigid_body/proto/tst_singular.py scitbx/rigid_body/proto/tst_spherical_refinement.py scitbx/serialization/ scitbx/serialization/tst_base_256.cpp scitbx/sparse/ scitbx/sparse/tests/ scitbx/sparse/tests/tst_lu_factorization.py scitbx/sparse/tests/tst_sparse.cpp scitbx/sparse/tests/tst_sparse.py scitbx/stl/ scitbx/stl/tst_map.py scitbx/stl/tst_set.py scitbx/stl/tst_vector.py scitbx/suffixtree/ scitbx/suffixtree/test/ scitbx/suffixtree/test/tst_single.py scitbx/tests/ scitbx/tests/tst_basic.csh scitbx/tests/tst_basic.py scitbx/tests/tst_cubicle_neighbors.py scitbx/tests/tst_genetic_algorithm_with_mp.py scitbx/tests/tst_minimizer_lbfgs_general.py scitbx/tests/tst_r3_utils.py scitbx/tests/tst_regular_grid_on_unit_sphere.py scitbx/tests/tst_smoothing.py scitbx/wigner/ scitbx/wigner/tst_wigner3j.py sent 1,122,945 bytes received 2,622 bytes 2,251,134.00 bytes/sec total size is 1,112,609 speedup is 0.99 building file list ... done sent 154 bytes received 12 bytes 332.00 bytes/sec total size is 0 speedup is 0.00 building file list ... done smtbx/ab_initio/ smtbx/ab_initio/tests/ smtbx/ab_initio/tests/tst_ab_initio_ext.py smtbx/ab_initio/tests/tst_charge_flipping.py smtbx/absolute_structure/ smtbx/absolute_structure/tests/ smtbx/absolute_structure/tests/tst_absolute_structure.py smtbx/masks/ smtbx/masks/tests/ smtbx/masks/tests/tst_masks.py smtbx/refinement/ smtbx/refinement/constraints/ smtbx/refinement/constraints/tests/ smtbx/refinement/constraints/tests/tst_constrained_structure.py smtbx/refinement/constraints/tests/tst_direction.py smtbx/refinement/constraints/tests/tst_disorder.py smtbx/refinement/constraints/tests/tst_geometrical_hydrogens.cpp smtbx/refinement/constraints/tests/tst_lbfgs.py smtbx/refinement/constraints/tests/tst_occupancies.py smtbx/refinement/constraints/tests/tst_reparametrisation.cpp smtbx/refinement/constraints/tests/tst_reparametrisation.py smtbx/refinement/constraints/tests/tst_rigid.py smtbx/refinement/constraints/tests/tst_same_group.py smtbx/refinement/constraints/tests/tst_special_position.cpp smtbx/refinement/restraints/ smtbx/refinement/restraints/tests/ smtbx/refinement/restraints/tests/tst_adp_restraints.py smtbx/refinement/restraints/tests/tst_manager.py smtbx/refinement/restraints/tests/tst_restraints.py smtbx/refinement/tests/ smtbx/refinement/tests/tst_least_squares.py smtbx/refinement/tests/tst_weighting_schemes.py smtbx/regression/ smtbx/regression/tst_commandline_anomrefine.py smtbx/regression/tst_commandline_refine.py smtbx/structure_factors/ smtbx/structure_factors/direct/ smtbx/structure_factors/direct/tests/ smtbx/structure_factors/direct/tests/tst_standard_xray.py smtbx/tests/ smtbx/tests/tst_utils.py sent 250,746 bytes received 519 bytes 502,530.00 bytes/sec total size is 248,243 speedup is 0.99 building file list ... done spotfinder/core_toolbox/ spotfinder/core_toolbox/boost_python/ spotfinder/core_toolbox/boost_python/tst_small_image.py sent 5,472 bytes received 37 bytes 11,018.00 bytes/sec total size is 5,074 speedup is 0.92 building file list ... done tbxx/ tbxx/tests/ tbxx/tests/tst_pretty_type_name.cpp sent 493 bytes received 41 bytes 1,068.00 bytes/sec total size is 323 speedup is 0.60 building file list ... done wxtbx/regression/ wxtbx/regression/tst_process_control.py sent 2,000 bytes received 34 bytes 4,068.00 bytes/sec total size is 1,770 speedup is 0.87 building file list ... done ./ annlib_adaptbx/ annlib_adaptbx/tests/ annlib_adaptbx/tests/data.txt annlib_adaptbx/tests/query.txt cctbx/maptbx/bcr/tables/ cctbx/maptbx/bcr/tables/Ag1+_wk1995.json.gz cctbx/maptbx/bcr/tables/Ag2+_wk1995.json.gz cctbx/maptbx/bcr/tables/Ag_electron.json.gz cctbx/maptbx/bcr/tables/Ag_wk1995.json.gz cctbx/maptbx/bcr/tables/Al3+_wk1995.json.gz cctbx/maptbx/bcr/tables/Al_electron.json.gz cctbx/maptbx/bcr/tables/Al_wk1995.json.gz cctbx/maptbx/bcr/tables/Au1+_wk1995.json.gz cctbx/maptbx/bcr/tables/Au3+_wk1995.json.gz cctbx/maptbx/bcr/tables/Au_electron.json.gz cctbx/maptbx/bcr/tables/Au_wk1995.json.gz cctbx/maptbx/bcr/tables/B_electron.json.gz cctbx/maptbx/bcr/tables/B_wk1995.json.gz cctbx/maptbx/bcr/tables/Ba2+_wk1995.json.gz cctbx/maptbx/bcr/tables/Ba_electron.json.gz cctbx/maptbx/bcr/tables/Ba_wk1995.json.gz cctbx/maptbx/bcr/tables/Br1-_wk1995.json.gz cctbx/maptbx/bcr/tables/Br_electron.json.gz cctbx/maptbx/bcr/tables/Br_wk1995.json.gz cctbx/maptbx/bcr/tables/C_electron.json.gz cctbx/maptbx/bcr/tables/C_wk1995.json.gz cctbx/maptbx/bcr/tables/Ca2+_wk1995.json.gz cctbx/maptbx/bcr/tables/Ca_electron.json.gz cctbx/maptbx/bcr/tables/Ca_wk1995.json.gz cctbx/maptbx/bcr/tables/Cd2+_wk1995.json.gz cctbx/maptbx/bcr/tables/Cd_electron.json.gz cctbx/maptbx/bcr/tables/Cd_wk1995.json.gz cctbx/maptbx/bcr/tables/Cl1-_wk1995.json.gz cctbx/maptbx/bcr/tables/Cl_electron.json.gz cctbx/maptbx/bcr/tables/Cl_wk1995.json.gz cctbx/maptbx/bcr/tables/Co2+_wk1995.json.gz cctbx/maptbx/bcr/tables/Co3+_wk1995.json.gz cctbx/maptbx/bcr/tables/Co_electron.json.gz cctbx/maptbx/bcr/tables/Co_wk1995.json.gz cctbx/maptbx/bcr/tables/Cr2+_wk1995.json.gz cctbx/maptbx/bcr/tables/Cr3+_wk1995.json.gz cctbx/maptbx/bcr/tables/Cr_electron.json.gz cctbx/maptbx/bcr/tables/Cr_wk1995.json.gz cctbx/maptbx/bcr/tables/Cu1+_wk1995.json.gz cctbx/maptbx/bcr/tables/Cu2+_wk1995.json.gz cctbx/maptbx/bcr/tables/Cu_electron.json.gz cctbx/maptbx/bcr/tables/Cu_wk1995.json.gz cctbx/maptbx/bcr/tables/D1-_wk1995.json.gz cctbx/maptbx/bcr/tables/D_wk1995.json.gz cctbx/maptbx/bcr/tables/F1-_wk1995.json.gz cctbx/maptbx/bcr/tables/F_electron.json.gz cctbx/maptbx/bcr/tables/F_wk1995.json.gz cctbx/maptbx/bcr/tables/Fe2+_wk1995.json.gz cctbx/maptbx/bcr/tables/Fe3+_wk1995.json.gz cctbx/maptbx/bcr/tables/Fe_electron.json.gz cctbx/maptbx/bcr/tables/Fe_wk1995.json.gz cctbx/maptbx/bcr/tables/H1-_wk1995.json.gz cctbx/maptbx/bcr/tables/H_electron.json.gz cctbx/maptbx/bcr/tables/H_wk1995.json.gz cctbx/maptbx/bcr/tables/Hg1+_wk1995.json.gz cctbx/maptbx/bcr/tables/Hg2+_wk1995.json.gz cctbx/maptbx/bcr/tables/Hg_electron.json.gz cctbx/maptbx/bcr/tables/Hg_wk1995.json.gz cctbx/maptbx/bcr/tables/I1-_wk1995.json.gz cctbx/maptbx/bcr/tables/I_electron.json.gz cctbx/maptbx/bcr/tables/I_wk1995.json.gz cctbx/maptbx/bcr/tables/K1+_wk1995.json.gz cctbx/maptbx/bcr/tables/K_electron.json.gz cctbx/maptbx/bcr/tables/K_wk1995.json.gz cctbx/maptbx/bcr/tables/Li1+_wk1995.json.gz cctbx/maptbx/bcr/tables/Li_electron.json.gz cctbx/maptbx/bcr/tables/Li_wk1995.json.gz cctbx/maptbx/bcr/tables/Mg2+_wk1995.json.gz cctbx/maptbx/bcr/tables/Mg_electron.json.gz cctbx/maptbx/bcr/tables/Mg_wk1995.json.gz cctbx/maptbx/bcr/tables/Mn2+_wk1995.json.gz cctbx/maptbx/bcr/tables/Mn3+_wk1995.json.gz cctbx/maptbx/bcr/tables/Mn4+_wk1995.json.gz cctbx/maptbx/bcr/tables/Mn_electron.json.gz cctbx/maptbx/bcr/tables/Mn_wk1995.json.gz cctbx/maptbx/bcr/tables/Mo3+_wk1995.json.gz cctbx/maptbx/bcr/tables/Mo5+_wk1995.json.gz cctbx/maptbx/bcr/tables/Mo6+_wk1995.json.gz cctbx/maptbx/bcr/tables/Mo_electron.json.gz cctbx/maptbx/bcr/tables/Mo_wk1995.json.gz cctbx/maptbx/bcr/tables/N_electron.json.gz cctbx/maptbx/bcr/tables/N_wk1995.json.gz cctbx/maptbx/bcr/tables/Na1+_wk1995.json.gz cctbx/maptbx/bcr/tables/Na_electron.json.gz cctbx/maptbx/bcr/tables/Na_wk1995.json.gz cctbx/maptbx/bcr/tables/Ni2+_wk1995.json.gz cctbx/maptbx/bcr/tables/Ni3+_wk1995.json.gz cctbx/maptbx/bcr/tables/Ni_electron.json.gz cctbx/maptbx/bcr/tables/Ni_wk1995.json.gz cctbx/maptbx/bcr/tables/O1-_wk1995.json.gz cctbx/maptbx/bcr/tables/O2-_wk1995.json.gz cctbx/maptbx/bcr/tables/O_electron.json.gz cctbx/maptbx/bcr/tables/O_wk1995.json.gz cctbx/maptbx/bcr/tables/P_electron.json.gz cctbx/maptbx/bcr/tables/P_wk1995.json.gz cctbx/maptbx/bcr/tables/Pt2+_wk1995.json.gz cctbx/maptbx/bcr/tables/Pt4+_wk1995.json.gz cctbx/maptbx/bcr/tables/Pt_electron.json.gz cctbx/maptbx/bcr/tables/Pt_wk1995.json.gz cctbx/maptbx/bcr/tables/S_electron.json.gz cctbx/maptbx/bcr/tables/S_wk1995.json.gz cctbx/maptbx/bcr/tables/Se_electron.json.gz 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iotbx/regression/data/non_zero_origin_model_split.cif iotbx/regression/data/non_zero_origin_model_split.pdb iotbx/regression/data/non_zero_origin_ncs_model.cif iotbx/regression/data/non_zero_origin_ncs_model.pdb iotbx/regression/data/non_zero_origin_ncs_spec.ncs_spec iotbx/regression/data/pdb1zff.ent iotbx/regression/data/phaser_1.mtz iotbx/regression/data/shelx.ins iotbx/xds/tests/INTEGRATE.HKL iotbx/xds/tests/NEW_XPARM.XDS iotbx/xds/tests/XDS.INP iotbx/xds/tests/XDS_2.INP iotbx/xds/tests/XPARM.XDS libtbx/citations.params mmtbx/regression/pdbs/ mmtbx/regression/pdbs/1ucs_cutted_xyz_rounded.pdb mmtbx/regression/pdbs/1yjp_h.pdb mmtbx/regression/pdbs/7n2l.pdb mmtbx/regression/pdbs/AF_json_v3.cif mmtbx/regression/pdbs/AF_json_v3.pdb mmtbx/regression/pdbs/Fe_1brf_snip_reduced.pdb mmtbx/regression/pdbs/fibronectin_af_ca_1358_1537.cif mmtbx/regression/pdbs/fibronectin_af_ca_1358_1537.pdb mmtbx/regression/pdbs/ligand_before_prot.pdb mmtbx/regression/pdbs/one_chain_ligand_water.pdb mmtbx/regression/pdbs/p9.pdb mmtbx/regression/pdbs/pae.pdb mmtbx/regression/pdbs/pae_model.cif mmtbx/regression/pdbs/pae_model.pdb mmtbx/regression/pdbs/test1.cif mmtbx/regression/pdbs/two_chains.pdb mmtbx/regression/pdbs/two_chains_ligand_water.pdb rstbx/indexing/results2.dat rstbx/indexing/si_brief.dat rstbx/indexing/si_synthetic.dat scitbx/array_family/boost_python/regression_test.py scitbx/tests/__init__.py scitbx/tests/differential_evolution.py scitbx/tests/direct_search_simulated_annealing.py scitbx/tests/golden_section_search.py scitbx/tests/simplex.py smtbx/regression/test_data/ smtbx/regression/test_data/sucrose_p1.res smtbx/regression/test_data/thpp.cif smtbx/regression/test_data/thpp.hkl smtbx/regression/test_data/thpp.ins sent 84,871,121 bytes received 11,272 bytes 169,764,786.00 bytes/sec total size is 84,750,513 speedup is 1.00 I: pybuild base:385: debian/install-cctbx.sh -- --destdir=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp --pyver=3.13 --srcdir=/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 --builddir='/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build'_ --modules='annlib_adaptbx boost_adaptbx cbflib_adaptbx ccp4io_adaptbx cctbx cma_es crys3d dxtbx fable gltbx iotbx libtbx mmtbx omptbx rstbx scitbx serialtbx smtbx spotfinder tbxx wxtbx' debian/install-cctbx.sh: line 7: 0: command not found --destdir '/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp' --pyver '3.13' --srcdir '/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1' --builddir '/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_' --modules 'annlib_adaptbx boost_adaptbx cbflib_adaptbx ccp4io_adaptbx cctbx cma_es crys3d dxtbx fable gltbx iotbx libtbx mmtbx omptbx rstbx scitbx serialtbx smtbx spotfinder tbxx wxtbx' -- Installing CCTBX into a FHS system Modules: annlib_adaptbx boost_adaptbx cbflib_adaptbx ccp4io_adaptbx cctbx cma_es crys3d dxtbx fable gltbx iotbx libtbx mmtbx omptbx rstbx scitbx serialtbx smtbx spotfinder tbxx wxtbx From the source /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 and build /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_ To the FHS : destdir /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp pyver 3.13 bindir /usr/bin incdir /usr/include pkglibdir /usr/lib/cctbx/python3.13 libdir /usr/lib/x86_64-linux-gnu pythondir /usr/lib/python3.13/dist-packages with PYTHONPATH /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build Copying libtbx_env from /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/.pybuild/cpython3_3.13_cctbx/build_ to /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13 {'_dispatcher_include_at_start': [], '_dispatcher_include_before_command': [], '_dispatcher_precall_commands': None, '_dispatcher_registry': 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relocatable="bin/libtbx.clear_paths"): relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../libtbx/command_line/clear_paths.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="bin/libtbx.find_clutter"): relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../libtbx/command_line/find_clutter.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="bin/libtbx.bibtex"): relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../libtbx/command_line/bibtex.sh"), relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="bin/libtbx.bundle_as_exe"): relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../libtbx/command_line/bundle_as_exe.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="bin/libtbx.assert_not_show_diff"): relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../libtbx/command_line/assert_not_show_diff.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="bin/libtbx.start_binary_bundle"): relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../libtbx/command_line/start_binary_bundle.py"), 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relocatable="../../../libtbx/command_line/create_mac_app.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="bin/libtbx.import_all_python"): relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../libtbx/command_line/import_all_python.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="bin/libtbx.show_number_of_processors"): relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../libtbx/command_line/show_number_of_processors.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="bin/libtbx.pdflatex"): 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relocatable="bin/libtbx.show_numeric_version"): relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../libtbx/command_line/show_numeric_version.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="bin/libtbx.help"): relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../libtbx/command_line/help.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="bin/libtbx.csh"): relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../libtbx/command_line/csh.sh"), relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="bin/libtbx.show_include_paths"): relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../libtbx/command_line/show_include_paths.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="bin/libtbx.show_build_path"): relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../libtbx/command_line/show_build_path.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="bin/libtbx.parallel_simple"): relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../libtbx/command_line/parallel_simple.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="bin/libtbx.find_unused_imports"): relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../libtbx/command_line/find_unused_imports.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="bin/libtbx.create_windows_exe"): relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../libtbx/command_line/create_windows_exe.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="bin/libtbx.env_run"): relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../libtbx/command_line/env_run.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="bin/libtbx.show_python_dependencies"): relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../libtbx/command_line/show_python_dependencies.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="bin/libtbx.nequal"): relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../libtbx/command_line/nequal.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="bin/libtbx.show_commands"): 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relocatable="bin/libtbx.analyse_code_comments"): relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../libtbx/command_line/analyse_code_comments.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="bin/libtbx.find_pdb_mmcif_problems"): relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../libtbx/command_line/find_pdb_mmcif_problems.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="bin/libtbx.install"): relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../libtbx/command_line/install.py"), 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relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="lib"), 'missing_for_build': set(), 'missing_for_use': set(), 'missing_optional': {'docutils', 'probe', 'king', 'cbflib', 'reduce'}, 'module_dict': {'annlib': , 'boost': , 'cbflib': , 'ccp4io': , 'cctbx': , 'chiltbx': , 'cma_es': , 'crys3d': , 'dxtbx': , 'fable': , 'gltbx': , 'iotbx': , 'libtbx': , 'mmtbx': , 'omptbx': , 'rstbx': , 'scitbx': , 'serialtbx': , 'smtbx': , 'spotfinder': , 'tbxx': , 'ucif': , 'wxtbx': }, 'module_dist_paths': {'annlib': relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../annlib"), 'annlib_adaptbx': relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../annlib_adaptbx"), 'boost': relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../boost"), 'boost_adaptbx': relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../boost_adaptbx"), 'cbflib_adaptbx': relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../cbflib_adaptbx"), 'ccp4io': relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../ccp4io"), 'ccp4io_adaptbx': relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../ccp4io_adaptbx"), 'cctbx': relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../cctbx"), 'chiltbx': relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../chiltbx"), 'cma_es': relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../cma_es"), 'crys3d': relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../crys3d"), 'dxtbx': relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../dxtbx"), 'fable': relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../fable"), 'gltbx': relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../gltbx"), 'iotbx': relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../iotbx"), 'libtbx': relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../libtbx"), 'mmtbx': relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../mmtbx"), 'omptbx': relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../omptbx"), 'rstbx': relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../rstbx"), 'scitbx': relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../scitbx"), 'serialtbx': relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../serialtbx"), 'smtbx': relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../smtbx"), 'spotfinder': relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../spotfinder"), 'tbxx': relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../tbxx"), 'ucif': relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../ucif"), 'wxtbx': relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../wxtbx")}, 'module_list': [, , , , , , , , , , , , , , , , , , , , , , ], 'no_bin_python': False, 'path_utility': relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../libtbx/command_line/path_utility.py"), 'python_exe': relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="/usr/bin/python3.13"), 'python_version_major_minor': (3, 13), 'pythonpath': [relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../.."), relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../dxtbx/src"), relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../../boost_adaptbx"), relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="lib"), relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="/usr/lib/python3.13/dist-packages"), relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="/usr/lib/python3/dist-packages"), relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="/usr/local/lib/python3.13/dist-packages")], 'relocatable': True, 'repository_paths': [relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="../../..")], 'scons_dist_path': relocatable_path(anchor="/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13", relocatable="/usr")} Saved /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1/debian/tmp/usr/lib/cctbx/python3.13/libtbx_env env {'_dispatcher_include_at_start': [], '_dispatcher_include_before_command': [], '_dispatcher_precall_commands': None, '_dispatcher_registry': {relocatable_path(anchor="/usr", relocatable="bin/gltbx.show_dist_paths"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_dist_paths.py"), relocatable_path(anchor="/usr", relocatable="bin/mmtbx.show_dist_paths"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_dist_paths.py"), relocatable_path(anchor="/usr", relocatable="bin/spotfinder.show_dist_paths"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_dist_paths.py"), relocatable_path(anchor="/usr", relocatable="bin/rstbx.show_dist_paths"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_dist_paths.py"), relocatable_path(anchor="/usr", relocatable="bin/serialtbx.show_dist_paths"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_dist_paths.py"), relocatable_path(anchor="/usr", relocatable="bin/wxtbx.show_dist_paths"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_dist_paths.py"), relocatable_path(anchor="/usr", relocatable="bin/wxtbx.xtriage"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/wxtbx/command_line/xtriage.py"), relocatable_path(anchor="/usr", relocatable="bin/mmtbx.xtriage_gui"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/wxtbx/command_line/xtriage.py"), relocatable_path(anchor="/usr", relocatable="bin/cctbx.plot_anomalous_scattering"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/wxtbx/command_line/plot_anomalous_scattering.py"), relocatable_path(anchor="/usr", relocatable="bin/wxtbx.anomalous_differences_histogram"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/wxtbx/command_line/anomalous_differences_histogram.py"), relocatable_path(anchor="/usr", relocatable="bin/wxtbx.show_file_info"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/wxtbx/command_line/show_file_info.py"), relocatable_path(anchor="/usr", relocatable="bin/mmtbx.pdb_statistics"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/wxtbx/command_line/pdb_statistics.py"), relocatable_path(anchor="/usr", relocatable="bin/cctbx.loggraph"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/wxtbx/command_line/loggraph.py"), relocatable_path(anchor="/usr", relocatable="bin/mmtbx.bfactor_plot"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/wxtbx/command_line/b_plot.py"), relocatable_path(anchor="/usr", relocatable="bin/phenix.pdb_editor"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/wxtbx/command_line/pdb_editor.py"), relocatable_path(anchor="/usr", relocatable="bin/cctbx.wxpython"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/wxtbx/command_line/wxpython.py"), relocatable_path(anchor="/usr", relocatable="bin/wxtbx.inspect_r_free_flags"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/wxtbx/command_line/inspect_r_free_flags.py"), relocatable_path(anchor="/usr", relocatable="bin/dxtbx.show_matching_formats"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/dxtbx/src/dxtbx/command_line/show_matching_formats.py"), relocatable_path(anchor="/usr", relocatable="bin/dxtbx.overload"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/dxtbx/src/dxtbx/command_line/overload.py"), relocatable_path(anchor="/usr", relocatable="bin/dev.dxtbx.read_sequence"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/dxtbx/src/dxtbx/command_line/read_sequence.py"), relocatable_path(anchor="/usr", relocatable="bin/dxtbx.detector_superpose"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/dxtbx/src/dxtbx/command_line/detector_superpose.py"), relocatable_path(anchor="/usr", relocatable="bin/dxtbx.dlsnxs2cbf"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/dxtbx/src/dxtbx/command_line/dlsnxs2cbf.py"), relocatable_path(anchor="/usr", relocatable="bin/dxtbx.print_header"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/dxtbx/src/dxtbx/command_line/print_header.py"), relocatable_path(anchor="/usr", relocatable="bin/dxtbx.show_mask_info"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/dxtbx/src/dxtbx/command_line/show_mask_info.py"), relocatable_path(anchor="/usr", relocatable="bin/dxtbx.plot_detector_models"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/dxtbx/src/dxtbx/command_line/plot_detector_models.py"), relocatable_path(anchor="/usr", relocatable="bin/dxtbx.print_matching_images"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/dxtbx/src/dxtbx/command_line/print_matching_images.py"), relocatable_path(anchor="/usr", relocatable="bin/dxtbx.depends_on"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/dxtbx/src/dxtbx/command_line/depends_on.py"), relocatable_path(anchor="/usr", relocatable="bin/dxtbx.show_registry"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/dxtbx/src/dxtbx/command_line/show_registry.py"), relocatable_path(anchor="/usr", relocatable="bin/dxtbx.saturation"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/dxtbx/src/dxtbx/command_line/saturation.py"), relocatable_path(anchor="/usr", relocatable="bin/dxtbx.any2nexus"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/dxtbx/src/dxtbx/command_line/any2nexus.py"), relocatable_path(anchor="/usr", relocatable="bin/dxtbx.install_format"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/dxtbx/src/dxtbx/command_line/install_format.py"), relocatable_path(anchor="/usr", relocatable="bin/dxtbx.display_parallax_correction"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/dxtbx/src/dxtbx/command_line/display_parallax_correction.py"), relocatable_path(anchor="/usr", relocatable="bin/dxtbx.radial_average"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/dxtbx/src/dxtbx/command_line/radial_average.py"), relocatable_path(anchor="/usr", relocatable="bin/dev.dxtbx.debug_memory"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/dxtbx/src/dxtbx/command_line/debug_memory.py"), relocatable_path(anchor="/usr", relocatable="bin/dxtbx.image2pickle"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/dxtbx/src/dxtbx/command_line/image2pickle.py"), relocatable_path(anchor="/usr", relocatable="bin/cxi.image2pickle"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/dxtbx/src/dxtbx/command_line/image2pickle.py"), relocatable_path(anchor="/usr", relocatable="bin/dxtbx.image_average"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/dxtbx/src/dxtbx/command_line/image_average.py"), relocatable_path(anchor="/usr", relocatable="bin/cxi.image_average"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/dxtbx/src/dxtbx/command_line/image_average.py"), relocatable_path(anchor="/usr", relocatable="bin/boost.python"): relocatable_path(anchor="/usr", relocatable="bin/python3.13"), relocatable_path(anchor="/usr", relocatable="bin/omptbx.python"): relocatable_path(anchor="/usr", relocatable="bin/python3.13"), relocatable_path(anchor="/usr", relocatable="bin/cma_es.python"): relocatable_path(anchor="/usr", relocatable="bin/python3.13"), relocatable_path(anchor="/usr", relocatable="bin/fable.python"): relocatable_path(anchor="/usr", relocatable="bin/python3.13"), relocatable_path(anchor="/usr", relocatable="bin/scitbx.python"): relocatable_path(anchor="/usr", relocatable="bin/python3.13"), relocatable_path(anchor="/usr", relocatable="bin/annlib.python"): relocatable_path(anchor="/usr", relocatable="bin/python3.13"), relocatable_path(anchor="/usr", relocatable="bin/cbflib.python"): relocatable_path(anchor="/usr", relocatable="bin/python3.13"), relocatable_path(anchor="/usr", relocatable="bin/ccp4io.python"): relocatable_path(anchor="/usr", relocatable="bin/python3.13"), relocatable_path(anchor="/usr", relocatable="bin/cctbx.python"): relocatable_path(anchor="/usr", relocatable="bin/python3.13"), relocatable_path(anchor="/usr", relocatable="bin/crys3d.python"): relocatable_path(anchor="/usr", relocatable="bin/python3.13"), relocatable_path(anchor="/usr", relocatable="bin/smtbx.python"): relocatable_path(anchor="/usr", relocatable="bin/python3.13"), relocatable_path(anchor="/usr", relocatable="bin/iotbx.python"): relocatable_path(anchor="/usr", relocatable="bin/python3.13"), relocatable_path(anchor="/usr", relocatable="bin/dxtbx.python"): relocatable_path(anchor="/usr", relocatable="bin/python3.13"), relocatable_path(anchor="/usr", relocatable="bin/gltbx.python"): relocatable_path(anchor="/usr", relocatable="bin/python3.13"), relocatable_path(anchor="/usr", relocatable="bin/mmtbx.python"): relocatable_path(anchor="/usr", relocatable="bin/python3.13"), relocatable_path(anchor="/usr", relocatable="bin/spotfinder.python"): relocatable_path(anchor="/usr", relocatable="bin/python3.13"), relocatable_path(anchor="/usr", relocatable="bin/rstbx.python"): relocatable_path(anchor="/usr", relocatable="bin/python3.13"), relocatable_path(anchor="/usr", relocatable="bin/serialtbx.python"): relocatable_path(anchor="/usr", relocatable="bin/python3.13"), relocatable_path(anchor="/usr", relocatable="bin/wxtbx.python"): relocatable_path(anchor="/usr", relocatable="bin/python3.13"), relocatable_path(anchor="/usr", relocatable="bin/boost.show_build_path"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_build_path.py"), relocatable_path(anchor="/usr", relocatable="bin/omptbx.show_build_path"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_build_path.py"), relocatable_path(anchor="/usr", relocatable="bin/cma_es.show_build_path"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_build_path.py"), relocatable_path(anchor="/usr", relocatable="bin/fable.show_build_path"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_build_path.py"), relocatable_path(anchor="/usr", relocatable="bin/scitbx.show_build_path"): relocatable_path(anchor="/usr", 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relocatable_path(anchor="/usr", relocatable="bin/libtbx.sge_qstat_counts"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/sge_qstat_counts.py"), relocatable_path(anchor="/usr", relocatable="bin/boost_adaptbx.show_platform_info"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/boost_adaptbx/command_line/show_platform_info.py"), relocatable_path(anchor="/usr", relocatable="bin/boost_adaptbx.double_overflow"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/boost_adaptbx/command_line/double_overflow.py"), relocatable_path(anchor="/usr", relocatable="bin/boost.gcd"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/boost_adaptbx/command_line/gcd.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.python"): relocatable_path(anchor="/usr", relocatable="bin/python3.13"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.exec"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/exec.sh")}, 'bin_path': relocatable_path(anchor="/usr", relocatable="bin"), 'boost_version': 109000, 'build_options': , 'build_path': absolute_path("/usr/lib/cctbx/python3.13"), 'command_line_redirections': {}, 'command_version_suffix': None, 'dispatcher_name': None, 'exe_path': relocatable_path(anchor="/usr", relocatable="bin"), 'explicitly_requested_modules': {'annlib', 'annlib_adaptbx', 'boost_adaptbx', 'cbflib_adaptbx', 'ccp4io', 'ccp4io_adaptbx', 'cctbx', 'cma_es', 'crys3d', 'dxtbx', 'fable', 'gltbx', 'iotbx', 'libtbx', 'mmtbx', 'omptbx', 'rstbx', 'scitbx', 'serialtbx', 'smtbx', 'spotfinder', 'tbxx', 'wxtbx'}, 'full_testing': False, 'include_path': relocatable_path(anchor="/usr", relocatable="include"), 'installed': True, 'installed_modules': [], 'installed_order': [], 'lib_path': relocatable_path(anchor="/usr", relocatable="lib"), 'missing_for_build': set(), 'missing_for_use': set(), 'missing_optional': {'docutils', 'probe', 'king', 'cbflib', 'reduce'}, 'module_dict': {'annlib': , 'boost': , 'cbflib': , 'ccp4io': , 'cctbx': , 'chiltbx': , 'cma_es': , 'crys3d': , 'dxtbx': , 'fable': , 'gltbx': , 'iotbx': , 'libtbx': , 'mmtbx': , 'omptbx': , 'rstbx': , 'scitbx': , 'serialtbx': , 'smtbx': , 'spotfinder': , 'tbxx': , 'ucif': , 'wxtbx': }, 'module_dist_paths': {'annlib': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/annlib"), 'annlib_adaptbx': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/annlib_adaptbx"), 'boost': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/boost"), 'boost_adaptbx': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/boost_adaptbx"), 'cbflib_adaptbx': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/cbflib_adaptbx"), 'ccp4io': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/ccp4io"), 'ccp4io_adaptbx': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/ccp4io_adaptbx"), 'cctbx': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/cctbx"), 'chiltbx': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/chiltbx"), 'cma_es': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/cma_es"), 'crys3d': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/crys3d"), 'dxtbx': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/dxtbx"), 'fable': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/fable"), 'gltbx': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/gltbx"), 'iotbx': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/iotbx"), 'libtbx': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx"), 'mmtbx': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx"), 'omptbx': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/omptbx"), 'rstbx': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/rstbx"), 'scitbx': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/scitbx"), 'serialtbx': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/serialtbx"), 'smtbx': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/smtbx"), 'spotfinder': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/spotfinder"), 'tbxx': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/tbxx"), 'ucif': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/ucif"), 'wxtbx': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/wxtbx")}, 'module_list': [, , , , , , , , , , , , , , , , , , , , , , ], 'no_bin_python': True, 'path_utility': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/path_utility.py"), 'python_exe': relocatable_path(anchor="/usr", relocatable="bin/python3.13"), 'python_version_major_minor': (3, 13), 'pythonpath': [], 'relocatable': True, 'repository_paths': [relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages")], 'scons_dist_path': relocatable_path(anchor="/usr", relocatable=".")} building file list ... done ./ boost_adaptbx/ boost_adaptbx/tests/ boost_adaptbx/tests/tst_optional_copy iotbx/ iotbx/pdb/ iotbx/pdb/hybrid_36_fem scitbx/ scitbx/array_family/ scitbx/array_family/tst_accessors scitbx/array_family/tst_af_1 scitbx/array_family/tst_af_2 scitbx/array_family/tst_af_3 scitbx/array_family/tst_af_4 scitbx/array_family/tst_af_5 scitbx/array_family/tst_mat3 scitbx/array_family/tst_optional_copy scitbx/array_family/tst_rectangular_full_packed scitbx/array_family/tst_ref_matrix_facet scitbx/array_family/tst_sym_mat3 scitbx/array_family/tst_unsigned_float_arithmetic scitbx/array_family/tst_vec3 scitbx/error/ scitbx/error/tst_error scitbx/lbfgs/ scitbx/lbfgs/tst_lbfgs scitbx/math/ scitbx/math/tests/ scitbx/math/tests/tst scitbx/matrix/ scitbx/matrix/tests/ scitbx/matrix/tests/tst_cholesky scitbx/matrix/tests/tst_givens scitbx/matrix/tests/tst_householder scitbx/matrix/tests/tst_svd scitbx/serialization/ scitbx/serialization/tst_base_256 smtbx/ smtbx/refinement/ smtbx/refinement/constraints/ smtbx/refinement/constraints/tests/ smtbx/refinement/constraints/tests/tst_geometrical_hydrogens smtbx/refinement/constraints/tests/tst_reparametrisation smtbx/refinement/constraints/tests/tst_special_position sent 15,659,168 bytes received 568 bytes 31,319,472.00 bytes/sec total size is 15,647,640 speedup is 1.00 building file list ... done ./ libann_adaptor.so.0.0.1 libasymmetric_map.so.0.0.1 libcbf-private.so.0.0.1 libccp4io.so.0.0.1 libcctbx.so.0.0.1 libcctbx_sgtbx_asu.so.0.0.1 libdxtbxspotfinder.so.0.0.1 libiotbx_mtz.so.0.0.1 libiotbx_pdb.so.0.0.1 libiotbx_xplor.so.0.0.1 libmmtbx_masks.so.0.0.1 libmmtbx_tls.so.0.0.1 libomptbx.so.0.0.1 librstbx.so.0.0.1 libscitbx_boost_python.so.0.0.1 libscitbx_minpack.so.0.0.1 libscitbx_slatec.so.0.0.1 libsmtbx_refinement_constraints.so.0.0.1 libspotfinder.so.0.0.1 sent 55,433,613 bytes received 494 bytes 110,868,214.00 bytes/sec total size is 55,417,154 speedup is 1.00 building file list ... done sent 114 bytes received 12 bytes 252.00 bytes/sec total size is 2,068 speedup is 16.41 building file list ... done boost_adaptbx/ sent 776 bytes received 19 bytes 1,590.00 bytes/sec total size is 72,301 speedup is 90.94 building file list ... done sent 354 bytes received 12 bytes 732.00 bytes/sec total size is 21,627 speedup is 59.09 building file list ... done sent 592 bytes received 12 bytes 1,208.00 bytes/sec total size is 86,686 speedup is 143.52 building file list ... done sent 7,186 bytes received 12 bytes 14,396.00 bytes/sec total size is 1,929,959 speedup is 268.12 building file list ... done sent 119 bytes received 12 bytes 262.00 bytes/sec total size is 6,671 speedup is 50.92 building file list ... done sent 199 bytes received 12 bytes 422.00 bytes/sec total size is 0 speedup is 0.00 building file list ... done sent 1,099 bytes received 12 bytes 2,222.00 bytes/sec total size is 397,404 speedup is 357.70 building file list ... done ./ sent 1,225 bytes received 19 bytes 2,488.00 bytes/sec total size is 201,540 speedup is 162.01 building file list ... done sent 316 bytes received 12 bytes 656.00 bytes/sec total size is 597,954 speedup is 1,823.03 building file list ... done sent 1,477 bytes received 12 bytes 2,978.00 bytes/sec total size is 270,145 speedup is 181.43 building file list ... done sent 1,284 bytes received 12 bytes 2,592.00 bytes/sec total size is 0 speedup is 0.00 building file list ... done sent 3,216 bytes received 12 bytes 6,456.00 bytes/sec total size is 2,046,334 speedup is 633.93 building file list ... done sent 123 bytes received 12 bytes 270.00 bytes/sec total size is 1,850 speedup is 13.70 building file list ... done sent 1,048 bytes received 12 bytes 2,120.00 bytes/sec total size is 109,476 speedup is 103.28 building file list ... done scitbx/ scitbx/array_family/ scitbx/array_family/boost_python/ scitbx/array_family/detail/ sent 7,777 bytes received 32 bytes 15,618.00 bytes/sec total size is 1,886,129 speedup is 241.53 building file list ... done sent 154 bytes received 12 bytes 332.00 bytes/sec total size is 0 speedup is 0.00 building file list ... done sent 1,359 bytes received 12 bytes 2,742.00 bytes/sec total size is 179,686 speedup is 131.06 building file list ... done sent 540 bytes received 12 bytes 1,104.00 bytes/sec total size is 41,966 speedup is 76.03 building file list ... done sent 228 bytes received 12 bytes 480.00 bytes/sec total size is 11,532 speedup is 48.05 building file list ... done sent 150 bytes received 12 bytes 324.00 bytes/sec total size is 0 speedup is 0.00 building file list ... done ./ boost_adaptbx/ boost_adaptbx/type_id_eq.h cctbx/ cctbx/boost_python/ cctbx/boost_python/flex_fwd.h scitbx/ scitbx/lbfgs_fem.hpp scitbx/array_family/ scitbx/array_family/operator_traits_builtin.h scitbx/array_family/ref_algebra.h scitbx/array_family/ref_apply.h scitbx/array_family/shared_algebra.h scitbx/array_family/shared_apply.h scitbx/array_family/shared_plain_apply.h scitbx/array_family/shared_reductions.h scitbx/array_family/small_algebra.h scitbx/array_family/small_apply.h scitbx/array_family/small_plain_apply.h scitbx/array_family/small_reductions.h scitbx/array_family/tiny_algebra.h scitbx/array_family/tiny_apply.h scitbx/array_family/tiny_plain_apply.h scitbx/array_family/tiny_reductions.h scitbx/array_family/versa_algebra.h scitbx/array_family/versa_apply.h scitbx/array_family/versa_plain_apply.h scitbx/array_family/versa_reductions.h scitbx/array_family/boost_python/ scitbx/array_family/boost_python/flex_fwd.h scitbx/array_family/detail/ scitbx/array_family/detail/operator_functors.h scitbx/array_family/detail/std_imports.h smtbx/ smtbx/boost_python/ smtbx/boost_python/flex_fwd.h sent 347,321 bytes received 540 bytes 695,722.00 bytes/sec total size is 345,070 speedup is 0.99 building file list ... done sent 253 bytes received 12 bytes 530.00 bytes/sec total size is 0 speedup is 0.00 building file list ... done boost_adaptbx/ boost_adaptbx/command_line/ boost_adaptbx/command_line/__init__.py boost_adaptbx/command_line/divide_by_zero.py boost_adaptbx/command_line/double_overflow.py boost_adaptbx/command_line/gcd.py boost_adaptbx/command_line/inexact.py boost_adaptbx/command_line/int_overflow.py boost_adaptbx/command_line/lcm.py boost_adaptbx/command_line/nested_cpp_loops_with_check_signals.py boost_adaptbx/command_line/segmentation_fault.py boost_adaptbx/command_line/show_environ_usage.py boost_adaptbx/command_line/show_platform_info.py sent 7,879 bytes received 231 bytes 16,220.00 bytes/sec total size is 6,883 speedup is 0.85 building file list ... done cbflib_adaptbx/ cbflib_adaptbx/command_line/ cbflib_adaptbx/command_line/__init__.py cbflib_adaptbx/command_line/dump.py sent 1,533 bytes received 60 bytes 3,186.00 bytes/sec total size is 1,215 speedup is 0.76 building file list ... done sent 143 bytes received 12 bytes 310.00 bytes/sec total size is 0 speedup is 0.00 building file list ... done cctbx/ cctbx/command_line/ cctbx/command_line/__init__.py cctbx/command_line/auto_sharpen.py cctbx/command_line/brehm_diederichs.py cctbx/command_line/cctbx_test_nightly.py cctbx/command_line/cod_select_and_pickle.py cctbx/command_line/diffuse.py cctbx/command_line/eltbx.show_fp_fdp.py cctbx/command_line/euclidean_model_matching.py cctbx/command_line/find_reticular_twin_laws.py cctbx/command_line/form_factor_query.py cctbx/command_line/precession_view.py cctbx/command_line/qscore.py cctbx/command_line/samosa_join.py cctbx/command_line/samosa_scale.py cctbx/command_line/segment_and_split_map.py cctbx/command_line/space_group_info.py cctbx/command_line/structure_factor_timings.py cctbx/command_line/subgroups.py cctbx/command_line/version.py cctbx/command_line/wavelength_units.py cctbx/command_line/web.install.csh sent 43,136 bytes received 421 bytes 87,114.00 bytes/sec total size is 39,872 speedup is 0.92 building file list ... done sent 81 bytes received 12 bytes 186.00 bytes/sec total size is 0 speedup is 0.00 building file list ... done crys3d/ crys3d/command_line/ crys3d/command_line/HKLinfo.py crys3d/command_line/HKLviewer.py crys3d/command_line/__init__.py crys3d/command_line/compare_datasets.py crys3d/command_line/hklview.py crys3d/command_line/make_install_HKLviewer_ChimeraX.py crys3d/command_line/model_viewer.py crys3d/command_line/multiplicity_viewer.py crys3d/command_line/qttbx.view_structure.py crys3d/command_line/visualize_r_factors.py sent 32,588 bytes received 212 bytes 65,600.00 bytes/sec total size is 31,684 speedup is 0.97 building file list ... done dxtbx/ dxtbx/command_line/ dxtbx/command_line/__init__.py dxtbx/command_line/any2nexus.py dxtbx/command_line/debug_memory.py dxtbx/command_line/depends_on.py dxtbx/command_line/detector_superpose.py dxtbx/command_line/display_parallax_correction.py dxtbx/command_line/dlsnxs2cbf.py dxtbx/command_line/image2pickle.py dxtbx/command_line/image_average.py dxtbx/command_line/install_format.py dxtbx/command_line/overload.py dxtbx/command_line/plot_detector_models.py dxtbx/command_line/print_header.py dxtbx/command_line/print_matching_images.py dxtbx/command_line/radial_average.py dxtbx/command_line/read_sequence.py dxtbx/command_line/saturation.py dxtbx/command_line/show_mask_info.py dxtbx/command_line/show_matching_formats.py dxtbx/command_line/show_registry.py sent 84,165 bytes received 402 bytes 169,134.00 bytes/sec total size is 82,437 speedup is 0.97 building file list ... done fable/ fable/command_line/ fable/command_line/__init__.py fable/command_line/cout.py fable/command_line/fem_include_search_paths.py fable/command_line/insert_write_at_start_of_each_procedure.py fable/command_line/read.py fable/command_line/show_calls.py fable/command_line/split.py sent 16,378 bytes received 155 bytes 33,066.00 bytes/sec total size is 15,611 speedup is 0.94 building file list ... done gltbx/ gltbx/command_line/ gltbx/command_line/__init__.py gltbx/command_line/try_imports.py sent 882 bytes received 60 bytes 1,884.00 bytes/sec total size is 606 speedup is 0.64 building file list ... done iotbx/ iotbx/command_line/ iotbx/command_line/__init__.py iotbx/command_line/biomt_reconstruction.py iotbx/command_line/blast_pdb.py iotbx/command_line/build_phil_cache.py iotbx/command_line/cbf_read.py iotbx/command_line/cif.as_miller_arrays.py iotbx/command_line/cif.as_xray_structure.py iotbx/command_line/cif.validate.py iotbx/command_line/cif_as_pdb.py iotbx/command_line/cns.reflection_reader.py iotbx/command_line/cns.sdb_reader.py iotbx/command_line/cns.transfer_crystal_symmetry.py iotbx/command_line/cns_as_mtz.py iotbx/command_line/crystal_symmetry_from_any.py iotbx/command_line/csv_as_mtz.py iotbx/command_line/dano_as_amplitudes.py iotbx/command_line/detector_image_as_png.py iotbx/command_line/distance_least_squares.py iotbx/command_line/dtrek.to_cns.py iotbx/command_line/effective_resolution.py iotbx/command_line/emma.py iotbx/command_line/explore_metric_symmetry.py iotbx/command_line/export_scalepack_unmerged.py iotbx/command_line/file_reader.py iotbx/command_line/flip_symmetric_amino_acids.py iotbx/command_line/french_wilson.py iotbx/command_line/get_pubmed_citation.py iotbx/command_line/lattice_symmetry.py iotbx/command_line/merging_statistics.py iotbx/command_line/mtrix_reconstruction.py iotbx/command_line/mtz.dump.py iotbx/command_line/mtz_as_cif.py iotbx/command_line/patterson_map.py iotbx/command_line/pdb.as_xray_structure.py iotbx/command_line/pdb.b_factor_stats.py iotbx/command_line/pdb.box_around_molecule.py iotbx/command_line/pdb.hierarchy.py iotbx/command_line/pdb.insert_scale_records.py iotbx/command_line/pdb.join_fragment_files.py iotbx/command_line/pdb.link_as_geometry_restraints_edits.py iotbx/command_line/pdb.print_sequence.py iotbx/command_line/pdb.superpose_atoms_by_name.py iotbx/command_line/pdb.superpose_centers_of_mass.py iotbx/command_line/pdb_add_conformations.py iotbx/command_line/pdb_as_cif.py iotbx/command_line/pdb_as_fasta.py iotbx/command_line/pdb_cif_conversion.py iotbx/command_line/pdb_get_citation.py iotbx/command_line/pdb_labels_comparison.py iotbx/command_line/pdb_labels_diff.py iotbx/command_line/pdb_remediator.py iotbx/command_line/pdb_show_connectivity.py iotbx/command_line/pdb_split_models.py iotbx/command_line/phil.py iotbx/command_line/poscar_as_xray_structure.py iotbx/command_line/r_free_flags_accumulation.py iotbx/command_line/r_free_flags_as_cns.py iotbx/command_line/r_free_flags_completion_simple.py iotbx/command_line/reflection_file_converter.py iotbx/command_line/reflection_file_editor.py iotbx/command_line/reflection_file_reader.py iotbx/command_line/reflection_statistics.py iotbx/command_line/reindex.py iotbx/command_line/shelx.as_cif.py iotbx/command_line/shelx.as_xray_structure.py iotbx/command_line/shelx.dump_as_python.py iotbx/command_line/show_distances.py iotbx/command_line/show_systematic_absences.py iotbx/command_line/simple_map_coefficients.py iotbx/command_line/sort_atoms.py iotbx/command_line/split_data_cif.py iotbx/command_line/symmetry_search.py iotbx/command_line/unique_with_biomt.py iotbx/command_line/xplor.map.show_summary.py sent 252,600 bytes received 1,428 bytes 508,056.00 bytes/sec total size is 246,561 speedup is 0.97 building file list ... done libtbx/ libtbx/command_line/ libtbx/command_line/__init__.py libtbx/command_line/add_docstrings_with_ai.py libtbx/command_line/analyse_code_comments.py libtbx/command_line/any2unix.py libtbx/command_line/assert_line_count.py libtbx/command_line/assert_not_show_diff.py libtbx/command_line/assert_stdin.py libtbx/command_line/assert_stdin_contains_strings.py libtbx/command_line/assert_stdin_ends_with.py libtbx/command_line/bash.sh libtbx/command_line/bibtex.sh libtbx/command_line/bootstrap.py libtbx/command_line/bundle_as_exe.py libtbx/command_line/bundle_as_selfx.csh libtbx/command_line/cctbx_chunk.py libtbx/command_line/check_libcpp.py libtbx/command_line/clean_clutter.py libtbx/command_line/clear_paths.py libtbx/command_line/configure.bat libtbx/command_line/configure.sh libtbx/command_line/create_cctbx_bundle_for_installer.py libtbx/command_line/create_install_script_bat.py libtbx/command_line/create_installer.py libtbx/command_line/create_mac_app.py libtbx/command_line/create_selfx.py libtbx/command_line/create_unzipsfx.py libtbx/command_line/create_windows_exe.py libtbx/command_line/csh.sh libtbx/command_line/dtrace.py libtbx/command_line/easy_qsub.py libtbx/command_line/env_run.py libtbx/command_line/epydoc_run.py libtbx/command_line/exec.sh libtbx/command_line/extract_code_from_txt.py libtbx/command_line/find_clutter.py libtbx/command_line/find_files.py libtbx/command_line/find_in_repositories.py libtbx/command_line/find_old_style_classes.py libtbx/command_line/find_pdb_mmcif_problems.py libtbx/command_line/find_reserved_names.py libtbx/command_line/find_under_build.py libtbx/command_line/find_untested.py libtbx/command_line/find_unused_imports.py libtbx/command_line/find_unused_imports_crude.py libtbx/command_line/gdb.sh libtbx/command_line/git_avoid_merges.py libtbx/command_line/help.py libtbx/command_line/import_all_ext.py libtbx/command_line/import_all_python.py libtbx/command_line/install.py libtbx/command_line/install_conda.py libtbx/command_line/ipython_shell_start.py libtbx/command_line/latex.sh libtbx/command_line/line_count.py libtbx/command_line/list_files.py libtbx/command_line/list_modules.py libtbx/command_line/list_source_files_sorted_by_size.py libtbx/command_line/make_dist.py libtbx/command_line/make_sphinx_html.py libtbx/command_line/nequal.py libtbx/command_line/parallel_simple.py libtbx/command_line/path_utility.py libtbx/command_line/pdflatex.sh libtbx/command_line/phil.py libtbx/command_line/prime_factors_of.py libtbx/command_line/printenv.py libtbx/command_line/py_compile_all.py libtbx/command_line/raise_exception_for_testing.py libtbx/command_line/refresh.bat libtbx/command_line/refresh.sh libtbx/command_line/reindent.py libtbx/command_line/remote_processing.py libtbx/command_line/remove_tree.py libtbx/command_line/remove_unused_imports.py libtbx/command_line/resource_monitor_plot.py libtbx/command_line/run_pickled_function.py libtbx/command_line/run_tests_parallel.py libtbx/command_line/scons.py libtbx/command_line/seconds_since_the_epoch.py libtbx/command_line/sge_available_slots.py libtbx/command_line/sge_qstat_counts.py libtbx/command_line/sh.sh libtbx/command_line/show_all_on_path.py libtbx/command_line/show_bin_path.py libtbx/command_line/show_build_options.py libtbx/command_line/show_build_path.py libtbx/command_line/show_but_no_repr.py libtbx/command_line/show_commands.py libtbx/command_line/show_date_and_time.py libtbx/command_line/show_dist_paths.py libtbx/command_line/show_env.py libtbx/command_line/show_environ_usage.py libtbx/command_line/show_full_command_path.py libtbx/command_line/show_host_and_user.py libtbx/command_line/show_include_paths.py libtbx/command_line/show_lib_path.py libtbx/command_line/show_module_dependencies.py libtbx/command_line/show_number_of_processors.py libtbx/command_line/show_numeric_version.py libtbx/command_line/show_numpy_version.py libtbx/command_line/show_python_dependencies.py libtbx/command_line/show_python_sys_executable.py libtbx/command_line/show_pythonpath.py libtbx/command_line/show_repository_paths.py libtbx/command_line/show_tests.py libtbx/command_line/show_variable_names.py libtbx/command_line/sphinx_build.py libtbx/command_line/start_binary_bundle.py libtbx/command_line/start_process.py libtbx/command_line/tcsh.sh libtbx/command_line/unpack_in_sources.csh libtbx/command_line/valgrind.sh libtbx/command_line/wait_for_file.py sent 229,738 bytes received 2,169 bytes 463,814.00 bytes/sec total size is 220,704 speedup is 0.95 building file list ... done mmtbx/ mmtbx/command_line/ mmtbx/command_line/__init__.py mmtbx/command_line/altloc_remediate.py mmtbx/command_line/angle.py mmtbx/command_line/apply_ncs_to_ligand.py mmtbx/command_line/arginine_geometry.py mmtbx/command_line/atom_valence_simple.py mmtbx/command_line/barbed_wire_analysis.py mmtbx/command_line/cablam.py mmtbx/command_line/cablam_idealization.py mmtbx/command_line/cbetadev.py mmtbx/command_line/cc_star.py mmtbx/command_line/chiral_validation.py mmtbx/command_line/cif_as_mtz.py mmtbx/command_line/clashscore.py mmtbx/command_line/clashscore2.py mmtbx/command_line/comparama.py mmtbx/command_line/debug_riding.py mmtbx/command_line/density_modification.py mmtbx/command_line/development_aev.py mmtbx/command_line/development_fem.py mmtbx/command_line/distance_difference.py mmtbx/command_line/dynamics.py mmtbx/command_line/electrons.py mmtbx/command_line/emringer.py mmtbx/command_line/emringer_score.py mmtbx/command_line/estimate_bijvoet_ratio.py mmtbx/command_line/f000.py mmtbx/command_line/fab_elbow_angle.py mmtbx/command_line/fake_f_obs.py mmtbx/command_line/fetch_pdb.py mmtbx/command_line/find_peaks_holes.py mmtbx/command_line/find_residue_in_pdb.py mmtbx/command_line/find_tls_groups.py mmtbx/command_line/fmodel.py mmtbx/command_line/fobs_minus_fobs_map.py mmtbx/command_line/geometry_minimization.py mmtbx/command_line/grow_density.py mmtbx/command_line/hbond.py mmtbx/command_line/helix_sheet_recs_as_pdb_files.py mmtbx/command_line/holton_geometry_validation.py mmtbx/command_line/hydrogenate.py mmtbx/command_line/kinemage.py mmtbx/command_line/ligand_restraints_validation.py mmtbx/command_line/map_box.py mmtbx/command_line/map_comparison.py mmtbx/command_line/map_to_model_histogram.py mmtbx/command_line/map_to_structure_factors.py mmtbx/command_line/maps.py mmtbx/command_line/mask.py mmtbx/command_line/massage_data.py mmtbx/command_line/matthews.py mmtbx/command_line/maximum_entropy_map.py mmtbx/command_line/model_idealization.py mmtbx/command_line/model_map.py mmtbx/command_line/model_model_distances.py mmtbx/command_line/model_vs_data.py mmtbx/command_line/model_vs_map.py mmtbx/command_line/model_vs_sequence.py mmtbx/command_line/models_as_chains.py mmtbx/command_line/molprobity.py mmtbx/command_line/mon_lib_cif_triage.py mmtbx/command_line/mp_geo.py mmtbx/command_line/mp_validate_bonds.py mmtbx/command_line/mtz2map.py mmtbx/command_line/next_gen_atom_typing.py mmtbx/command_line/nonbonded_overlaps.py mmtbx/command_line/omegalyze.py mmtbx/command_line/pdb_atom_selection.py mmtbx/command_line/pdb_interpretation.py mmtbx/command_line/pdbtools.py mmtbx/command_line/perigee.py mmtbx/command_line/plan_sad_experiment.py mmtbx/command_line/polder.py mmtbx/command_line/prepare_pdb_deposition.py mmtbx/command_line/probe2.py mmtbx/command_line/probescore_ligand.py mmtbx/command_line/process_predicted_model.py mmtbx/command_line/prune_model.py mmtbx/command_line/quantum_interface.py mmtbx/command_line/r_factor_statistics.py mmtbx/command_line/rama_z.py mmtbx/command_line/ramalyze.py mmtbx/command_line/rank_scale_map.py mmtbx/command_line/real_space_correlation.py mmtbx/command_line/real_space_diff_map.py mmtbx/command_line/rebuild_cablam_cache.py mmtbx/command_line/rebuild_rotarama_cache.py mmtbx/command_line/reciprocal_space_arrays.py mmtbx/command_line/reduce2.py mmtbx/command_line/reduce_cryoem_resolution.py mmtbx/command_line/refine_anomalous_substructure.py mmtbx/command_line/remove_outliers.py mmtbx/command_line/ribbons.py mmtbx/command_line/rigid_bond_test.py mmtbx/command_line/ringer.py mmtbx/command_line/rna_validate.py mmtbx/command_line/rna_validate_bonds.py mmtbx/command_line/rna_validate_puckers.py mmtbx/command_line/rna_validate_suites.py mmtbx/command_line/rotalyze.py mmtbx/command_line/search_pdb_symmetry.py mmtbx/command_line/secondary_structure_restraints.py mmtbx/command_line/secondary_structure_validation.py mmtbx/command_line/select_best_starting_model.py mmtbx/command_line/show_r_factors_by_shell.py mmtbx/command_line/sisa.py mmtbx/command_line/sort_hetatms.py mmtbx/command_line/ss_idealization.py mmtbx/command_line/suitename.py mmtbx/command_line/suitename_old.py mmtbx/command_line/super.py mmtbx/command_line/superpose.py mmtbx/command_line/taam_minus_iam.py mmtbx/command_line/table_one.py mmtbx/command_line/tls.py mmtbx/command_line/tls_analysis.py mmtbx/command_line/tls_as_xyz.py mmtbx/command_line/undowser.py mmtbx/command_line/undowser2.py mmtbx/command_line/validate_H_cl_app.py mmtbx/command_line/validate_ligands.py mmtbx/command_line/validation_summary.py mmtbx/command_line/verify_mon_lib_data.py mmtbx/command_line/water_b_factors.py mmtbx/command_line/where_is_that_cif_file.py mmtbx/command_line/xmanip.py mmtbx/command_line/xtrapol8.py mmtbx/command_line/xtriage.py mmtbx/regression/ mmtbx/regression/command_line/ mmtbx/regression/command_line/tst_find_residue_in_pdb.py sent 727,897 bytes received 2,479 bytes 1,460,752.00 bytes/sec total size is 717,429 speedup is 0.98 building file list ... done sent 70 bytes received 12 bytes 164.00 bytes/sec total size is 0 speedup is 0.00 building file list ... done rstbx/ rstbx/command_line/ rstbx/command_line/__init__.py rstbx/command_line/example_viewer.py rstbx/command_line/index.py rstbx/command_line/simage.create.py rstbx/command_line/simage.explore_completeness.py rstbx/command_line/simage.solver.py rstbx/command_line/simage.wx_display.py rstbx/command_line/slip_viewer.py rstbx/command_line/viewer.py sent 12,288 bytes received 193 bytes 24,962.00 bytes/sec total size is 11,139 speedup is 0.89 building file list ... done scitbx/ scitbx/command_line/ scitbx/command_line/__init__.py scitbx/command_line/apply_tapenade_hints.py scitbx/command_line/generate_error_h.py scitbx/command_line/histogram.py scitbx/command_line/show_exp_times.py scitbx/command_line/show_sizes.py scitbx/command_line/unicode_examples.py sent 11,858 bytes received 155 bytes 24,026.00 bytes/sec total size is 10,021 speedup is 0.83 building file list ... done sent 154 bytes received 12 bytes 332.00 bytes/sec total size is 0 speedup is 0.00 building file list ... done smtbx/ smtbx/command_line/ smtbx/command_line/__init__.py smtbx/command_line/absolute_structure.py smtbx/command_line/anom_refine.py smtbx/command_line/benchmark_refinement.py smtbx/command_line/masks.py smtbx/command_line/refine.py sent 38,578 bytes received 136 bytes 77,428.00 bytes/sec total size is 37,436 speedup is 0.97 building file list ... done spotfinder/ spotfinder/command_line/ spotfinder/command_line/__init__.py spotfinder/command_line/find_active_area.py spotfinder/command_line/image_viewer.py spotfinder/command_line/mp_spotfinder_server_read_file.py spotfinder/command_line/signal_strength.py spotfinder/command_line/sweep_strength.py spotfinder/command_line/thin_client.py sent 23,566 bytes received 155 bytes 47,442.00 bytes/sec total size is 22,750 speedup is 0.96 building file list ... done sent 81 bytes received 12 bytes 186.00 bytes/sec total size is 0 speedup is 0.00 building file list ... done wxtbx/ wxtbx/command_line/ wxtbx/command_line/__init__.py wxtbx/command_line/anomalous_differences_histogram.py wxtbx/command_line/b_plot.py wxtbx/command_line/inspect_r_free_flags.py wxtbx/command_line/loggraph.py wxtbx/command_line/pdb_editor.py wxtbx/command_line/pdb_statistics.py wxtbx/command_line/plan_sad_experiment.py wxtbx/command_line/plot_anomalous_scattering.py wxtbx/command_line/show_file_info.py wxtbx/command_line/wxpython.py wxtbx/command_line/xtriage.py sent 17,087 bytes received 250 bytes 34,674.00 bytes/sec total size is 16,108 speedup is 0.93 building file list ... done sent 253 bytes received 12 bytes 530.00 bytes/sec total size is 0 speedup is 0.00 building file list ... done boost_adaptbx/graph/ boost_adaptbx/graph/tests/ boost_adaptbx/graph/tests/tst_graph.py boost_adaptbx/graph/tests/tst_graph_breadth_first_search.py boost_adaptbx/graph/tests/tst_graph_clustering_algorithm.py boost_adaptbx/graph/tests/tst_graph_connected_component_algorithm.py boost_adaptbx/graph/tests/tst_graph_graph_structure_comparison.py boost_adaptbx/graph/tests/tst_graph_maximum_clique.py boost_adaptbx/graph/tests/tst_graph_metric.py boost_adaptbx/graph/tests/tst_graph_min_cut_max_flow.py boost_adaptbx/graph/tests/tst_graph_minimum_cut_enumerate.py boost_adaptbx/graph/tests/tst_graph_utility.py boost_adaptbx/tests/ boost_adaptbx/tests/tst_boost_thread.py boost_adaptbx/tests/tst_char_array.py boost_adaptbx/tests/tst_deprecation_tools.py boost_adaptbx/tests/tst_libc_backtrace.py boost_adaptbx/tests/tst_optional.py boost_adaptbx/tests/tst_optional_copy.cpp boost_adaptbx/tests/tst_optional_copy.h boost_adaptbx/tests/tst_python_streambuf.py boost_adaptbx/tests/tst_rational.py boost_adaptbx/tests/tst_std_pair.py boost_adaptbx/tests/tst_stderr_stdout.py boost_adaptbx/tests/tst_stdin.py boost_adaptbx/tests/tst_stdout.py boost_adaptbx/tests/tst_string_representation.py boost_adaptbx/tests/tst_swig_args.py boost_adaptbx/tests/tst_tuple.py sent 91,621 bytes received 515 bytes 184,272.00 bytes/sec total size is 89,629 speedup is 0.97 building file list ... done cbflib_adaptbx/detectors/ cbflib_adaptbx/detectors/tst_memory.cpp sent 1,199 bytes received 34 bytes 2,466.00 bytes/sec total size is 967 speedup is 0.78 building file list ... done ccp4io_adaptbx/ ccp4io_adaptbx/tst.py ccp4io_adaptbx/dev/ ccp4io_adaptbx/dev/tst_fftlib.py sent 9,502 bytes received 60 bytes 19,124.00 bytes/sec total size is 9,204 speedup is 0.96 building file list ... done cctbx/adp_restraints/ cctbx/adp_restraints/tst_ext.py cctbx/adptbx/ cctbx/adptbx/boost_python/ cctbx/adptbx/boost_python/tst_adptbx.py cctbx/adptbx/boost_python/tst_hirshfeld.py cctbx/array_family/ cctbx/array_family/boost_python/ cctbx/array_family/boost_python/tst_flex.py cctbx/covariance/ cctbx/covariance/tests/ cctbx/covariance/tests/tst_covariance.py cctbx/crystal/ cctbx/crystal/tst_distance_based_connectivity.py cctbx/crystal/tst_ext.py cctbx/crystal/tst_super_cell.py cctbx/development/ cctbx/development/tst_cns_epsilon.py cctbx/development/tst_cns_hl.py cctbx/dispersion/ cctbx/dispersion/tests/ cctbx/dispersion/tests/tst_kramers_kronig.py cctbx/dispersion/tests/tst_kramers_kronig_helper.py cctbx/dispersion/tests/tst_kramers_kronig_optimize.py cctbx/dmtbx/ cctbx/dmtbx/boost_python/ cctbx/dmtbx/boost_python/tst_dmtbx.py cctbx/eltbx/ cctbx/eltbx/tests/ cctbx/eltbx/tests/tst_attenuation_coefficient.py cctbx/eltbx/tests/tst_chemical_elements.py cctbx/eltbx/tests/tst_covalent_radii.py cctbx/eltbx/tests/tst_formula.py cctbx/eltbx/tests/tst_henke.py cctbx/eltbx/tests/tst_icsd_radii.py cctbx/eltbx/tests/tst_neutron.py cctbx/eltbx/tests/tst_sasaki.py cctbx/eltbx/tests/tst_tiny_pse.py cctbx/eltbx/tests/tst_wavelengths.py cctbx/eltbx/tests/tst_xray_scattering.py cctbx/examples/ cctbx/examples/tst_exp_i_alpha_derivatives.py cctbx/examples/tst_g_exp_i_alpha_derivatives.py cctbx/examples/tst_phase_o_phrenia.py cctbx/examples/tst_space_subgroups.py cctbx/examples/tst_structure_factor_derivatives.py cctbx/examples/tst_structure_factor_derivatives_2.py cctbx/examples/tst_structure_factor_derivatives_3.py cctbx/examples/tst_structure_factor_derivatives_4.py cctbx/examples/merging/ cctbx/examples/merging/tst_permutations.py cctbx/geometry/ cctbx/geometry/tests/ cctbx/geometry/tests/tst_geometry.py cctbx/geometry_restraints/ cctbx/geometry_restraints/tst_angle_derivs.py cctbx/geometry_restraints/tst_ext.py cctbx/geometry_restraints/tst_motif.py cctbx/geometry_restraints/tst_process_nonbonded_proxies.py cctbx/geometry_restraints/tst_proxy_registry.py cctbx/maptbx/ cctbx/maptbx/tst_asymmetric_map.py cctbx/maptbx/tst_atom_curves.py cctbx/maptbx/tst_atom_radius_as_central_peak_width.py cctbx/maptbx/tst_bcr.py cctbx/maptbx/tst_ccp.py cctbx/maptbx/tst_get_percentile_cutoffs.py cctbx/maptbx/tst_interpolation.py cctbx/maptbx/tst_interpolation_2.py cctbx/maptbx/tst_loft.py cctbx/maptbx/tst_map_peak_3d_as_2d.py cctbx/maptbx/tst_mask.py cctbx/maptbx/tst_peak_volume_estimate.py cctbx/maptbx/tst_qscore.py cctbx/maptbx/tst_real_space_refinement_simple.py cctbx/maptbx/tst_resolution_from_map_and_model.py cctbx/maptbx/tst_target_and_gradients.py cctbx/maptbx/bcr/ cctbx/maptbx/bcr/tst_adp_refine.py cctbx/maptbx/bcr/tst_example.py cctbx/maptbx/bcr/tst_qmap_02.py cctbx/maptbx/bcr/tst_table.py cctbx/maptbx/bcr/tst_two_atoms.py cctbx/maptbx/bcr/tst_vrm.py cctbx/maptbx/bcr/tst_vrm2.py cctbx/maptbx/boost_python/ cctbx/maptbx/boost_python/tst_maptbx.py cctbx/masks/ cctbx/masks/tests/ cctbx/masks/tests/tst_flood_fill.py cctbx/math/ cctbx/math/boost_python/ cctbx/math/boost_python/tst_math.py cctbx/miller/ cctbx/miller/tst_map_to_asu_isym.py cctbx/miller/tst_reindexing.py cctbx/miller/boost_python/ cctbx/miller/boost_python/tst_miller.py cctbx/multipolar/ cctbx/multipolar/regression/ cctbx/multipolar/regression/tst_multipolar.py cctbx/omz/ cctbx/omz/tst_bfgs.py cctbx/omz/tst_cod.csh cctbx/omz/tst_dev.py cctbx/regression/ cctbx/regression/tst_adp_aniso_restraints.py cctbx/regression/tst_adp_constraints.py cctbx/regression/tst_adp_constraints_cartesian.py cctbx/regression/tst_amplitude_normalisation.py cctbx/regression/tst_change_basis.py cctbx/regression/tst_connectivity.py cctbx/regression/tst_connectivity_allsym.py cctbx/regression/tst_coordination_sequences.py cctbx/regression/tst_create_models_or_maps.py cctbx/regression/tst_crystal.py cctbx/regression/tst_crystal_asu_clusters.py cctbx/regression/tst_crystal_close_packing.py cctbx/regression/tst_diffuse.py cctbx/regression/tst_direct_scaling.py cctbx/regression/tst_direct_space_asu.py cctbx/regression/tst_emma.py cctbx/regression/tst_expand_to_p1.py cctbx/regression/tst_f_model.py cctbx/regression/tst_fast_nv1995.py cctbx/regression/tst_fcalc_fft_stability.py cctbx/regression/tst_find_best_cell.py cctbx/regression/tst_fourier_transform_real_part_at_x.py cctbx/regression/tst_french_wilson.py cctbx/regression/tst_geometry_restraints.py cctbx/regression/tst_geometry_restraints_2.py cctbx/regression/tst_geometry_restraints_lbfgs.py cctbx/regression/tst_grm_modifications.py cctbx/regression/tst_grm_modifications_rm.py cctbx/regression/tst_grm_pickling.py cctbx/regression/tst_grouped_data.py cctbx/regression/tst_itvb_2001_table_a1427_hall_symbols.py cctbx/regression/tst_krivy_gruber.py cctbx/regression/tst_loc_res.py cctbx/regression/tst_map_is_periodic.py cctbx/regression/tst_map_weights_for_symmetry_summation.py cctbx/regression/tst_maptbx_box.py cctbx/regression/tst_maptbx_mask.py cctbx/regression/tst_maptbx_structure_factors.py cctbx/regression/tst_math_module.py cctbx/regression/tst_mem.py cctbx/regression/tst_mem_2.py cctbx/regression/tst_miller.py cctbx/regression/tst_miller_data_manipulation.py cctbx/regression/tst_miller_double_step_filtration.py cctbx/regression/tst_miller_fft_map.py cctbx/regression/tst_miller_lookup_utils.py cctbx/regression/tst_miller_merge_equivalents.py cctbx/regression/tst_miller_statistics.py cctbx/regression/tst_niggli_reduction_cpp.py cctbx/regression/tst_pair_asu_table.py cctbx/regression/tst_pointgroup_tools.py cctbx/regression/tst_prepare_map_for_docking.py cctbx/regression/tst_r_free_utils.py cctbx/regression/tst_reciprocal_space_asu.py cctbx/regression/tst_refine_xray_curvs.py cctbx/regression/tst_reflection_statistics.py cctbx/regression/tst_sampled_model_density.py cctbx/regression/tst_sf_low_res_accuracy.py cctbx/regression/tst_sgtbx.py cctbx/regression/tst_sgtbx_denominators.py cctbx/regression/tst_sgtbx_harker.py cctbx/regression/tst_sgtbx_lattice_symmetry.py cctbx/regression/tst_sgtbx_site_constraints.py cctbx/regression/tst_sgtbx_special_op_simplifier.py cctbx/regression/tst_sgtbx_subgroups.py cctbx/regression/tst_sgtbx_tidy_pickling.py cctbx/regression/tst_show_cosets.py cctbx/regression/tst_space_group_type_tidy_cb_op_t.py cctbx/regression/tst_sphericity.py cctbx/regression/tst_statistics_graphs.py cctbx/regression/tst_triplet_generator.py cctbx/regression/tst_twin_target.py cctbx/regression/tst_wavelength_units.py cctbx/regression/tst_web_change_basis.py cctbx/regression/tst_weighting_schemes.py cctbx/regression/tst_wilson_plot.py cctbx/regression/tst_xray.py cctbx/regression/tst_xray_derivatives.py cctbx/regression/tst_xray_fast_gradients.py cctbx/regression/tst_xray_minimization.py cctbx/regression/tst_xray_minimization_failure.py cctbx/regression/tst_xray_target_functors.py cctbx/sgtbx/ cctbx/sgtbx/boost_python/ cctbx/sgtbx/boost_python/tst_N_fold_rot.py cctbx/sgtbx/boost_python/tst_sgtbx.py cctbx/sgtbx/direct_space_asu/ cctbx/sgtbx/direct_space_asu/proto/ cctbx/sgtbx/direct_space_asu/proto/tst_asu.cpp cctbx/sgtbx/direct_space_asu/proto/tst_asu.py cctbx/symmetry_search/ cctbx/symmetry_search/tests/ cctbx/symmetry_search/tests/tst_from_map.py cctbx/symmetry_search/tests/tst_goodness_of_symmetry.py cctbx/translation_search/ cctbx/translation_search/boost_python/ cctbx/translation_search/boost_python/tst_translation_search.py cctbx/uctbx/ cctbx/uctbx/boost_python/ cctbx/uctbx/boost_python/tst_crystal_orientation.py cctbx/uctbx/boost_python/tst_uctbx.py cctbx/uctbx/lrl/ cctbx/uctbx/lrl/tst_match_lattices.py cctbx/xray/ cctbx/xray/boost_python/ cctbx/xray/boost_python/tst_f_model.py cctbx/xray/boost_python/tst_targets_fd.py cctbx/xray/boost_python/tst_xray.py cctbx/xray/observations/ cctbx/xray/observations/tst_observations.py cctbx/xray/targets/ cctbx/xray/targets/tst_r1.py cctbx/xray/targets/tst_shelxl_wght_ls.py sent 2,096,889 bytes received 3,409 bytes 4,200,596.00 bytes/sec total size is 2,082,707 speedup is 0.99 building file list ... done cma_es/ cma_es/tst_cma_es.py sent 3,163 bytes received 38 bytes 6,402.00 bytes/sec total size is 3,008 speedup is 0.94 building file list ... done crys3d/regression/ crys3d/regression/tst_HKLviewerOSbrowserBinFSigF.py crys3d/regression/tst_HKLviewerOSbrowserSliceK-9.py crys3d/regression/tst_HKLviewerQtGuiBinFSigF.py crys3d/regression/tst_HKLviewerQtGuiSliceK-9.py crys3d/regression/tst_hklinfo.py crys3d/regression/tst_websocket.py sent 42,502 bytes received 129 bytes 85,262.00 bytes/sec total size is 41,869 speedup is 0.98 building file list ... done sent 599 bytes received 12 bytes 1,222.00 bytes/sec total size is 0 speedup is 0.00 building file list ... done fable/tst_cout.py fable/tst_cout_compile.py fable/tst_equivalence.py fable/tst_ext.py fable/tst_read.py fable/test/ fable/test/tst_command_line.py fable/test/tst_io.py fable/test/tst_separate_files.py fable/test/tst_show_calls.py sent 152,755 bytes received 186 bytes 305,882.00 bytes/sec total size is 151,869 speedup is 0.99 building file list ... done gltbx/tst.py gltbx/tst_ellipsoids.py gltbx/tst_fonts.py gltbx/tst_viewer_utils.py sent 8,484 bytes received 88 bytes 17,144.00 bytes/sec total size is 8,108 speedup is 0.95 building file list ... done iotbx/bioinformatics/ iotbx/bioinformatics/test/ iotbx/bioinformatics/test/tst_alignment_as_hsearch.py iotbx/bioinformatics/test/tst_ebi_wu_blast_xml.py iotbx/bioinformatics/test/tst_local_blast.py iotbx/bioinformatics/test/tst_ncbi_blast_xml.py iotbx/ccp4_map/ iotbx/ccp4_map/tst.py iotbx/ccp4_map/tst_input.map iotbx/cif/ iotbx/cif/tests/ iotbx/cif/tests/tst_citations.py iotbx/cif/tests/tst_cod.py iotbx/cif/tests/tst_crystal_symmetry_builder.py iotbx/cif/tests/tst_geometry.py iotbx/cif/tests/tst_lex_parse_build.py iotbx/cif/tests/tst_model.py iotbx/cif/tests/tst_model_builder.py iotbx/cif/tests/tst_parser.py iotbx/cif/tests/tst_restraints.py iotbx/cif/tests/tst_ucif_examples_compilation.py iotbx/cif/tests/tst_validation.py iotbx/cns/ iotbx/cns/tst_cns.py iotbx/detectors/ iotbx/detectors/tst_adsc.py iotbx/detectors/tst_cbf_comp_read_meth.py iotbx/detectors/tst_debug_write.py iotbx/detectors/tst_detectors.py iotbx/detectors/tst_py_cbf.py iotbx/dsn6/ iotbx/dsn6/tst.py iotbx/examples/ iotbx/examples/tst_mtz_free_flipper.py iotbx/examples/pdb_truncate_to_ala/ iotbx/examples/pdb_truncate_to_ala/tst.py iotbx/gui_tools/ iotbx/gui_tools/tst.py iotbx/kriber/ iotbx/kriber/tst_strudat.py iotbx/mtz/ iotbx/mtz/tst.py iotbx/mtz/tst_dano.py iotbx/mtz/tst_ext.py iotbx/mtz/tst_extract_from_symmetry_lib.py iotbx/mtz/tst_miller_dict.py iotbx/mtz/tst_unmerged.py iotbx/pdb/ iotbx/pdb/tst_atom_name_interpretation.py iotbx/pdb/tst_atom_selection.py iotbx/pdb/tst_atom_selection_string.py iotbx/pdb/tst_ext.py iotbx/pdb/tst_extract_rfactors_resolutions_sigma.py iotbx/pdb/tst_hierarchy.py iotbx/pdb/tst_hierarchy_atom_sort.py iotbx/pdb/tst_hierarchy_flip_symmetric.py iotbx/pdb/tst_hierarchy_flip_symmetric_2.py iotbx/pdb/tst_mmcif.py iotbx/pdb/tst_mmcif_hierarchy.py iotbx/pdb/tst_mmcif_hierarchy_2.py iotbx/pdb/tst_pdb.py iotbx/pdb/tst_read_mtrix_records_from_cif.py iotbx/pdb/tst_rna_dna_atom_names.py iotbx/pdb/tst_secondary_structure.py iotbx/pdb/tst_secondary_structure_2.py iotbx/pdb/tst_tls.py iotbx/pdb/tst_utils.py iotbx/pdb/remediation/ iotbx/pdb/remediation/tst_remediator.py iotbx/regression/ iotbx/regression/tst_add_conformations.py iotbx/regression/tst_all_chain_ids.py iotbx/regression/tst_atom_selections_10k.py iotbx/regression/tst_bioinformatics.py iotbx/regression/tst_box_around_molecule.py iotbx/regression/tst_cif_1.py iotbx/regression/tst_cif_as_pdb_1atom.py iotbx/regression/tst_cli_parser.py iotbx/regression/tst_crystal_symmetry_from_any.py iotbx/regression/tst_csv_utils.py iotbx/regression/tst_data_manager.py iotbx/regression/tst_data_plots.py iotbx/regression/tst_examples.py iotbx/regression/tst_export_scalepack_unmerged.py iotbx/regression/tst_extract_xtal_data.py iotbx/regression/tst_fetch.py iotbx/regression/tst_file_reader.py iotbx/regression/tst_generate_n_char_string.py iotbx/regression/tst_group_rounding.py iotbx/regression/tst_hierarchy_altlocs.py iotbx/regression/tst_hierarchy_copy_select.py iotbx/regression/tst_hierarchy_forward_compatible_pdb.py iotbx/regression/tst_hierarchy_id_str.py iotbx/regression/tst_hierarchy_long_chain_ids_1.py iotbx/regression/tst_hierarchy_long_resname_1.py iotbx/regression/tst_hierarchy_long_resname_2.py iotbx/regression/tst_hierarchy_long_resname_3.py iotbx/regression/tst_hierarchy_long_resname_4.py iotbx/regression/tst_hierarchy_merge_atoms_at_end_to_residues.py iotbx/regression/tst_hierarchy_occupancies_rounding.py iotbx/regression/tst_hierarchy_pdb_v3.py iotbx/regression/tst_lattice_symmetry.py iotbx/regression/tst_map_manager.py iotbx/regression/tst_map_manager_2.py iotbx/regression/tst_map_manager_wrapping.py iotbx/regression/tst_map_model_manager.py iotbx/regression/tst_map_model_manager_2.py iotbx/regression/tst_map_model_manager_3.py iotbx/regression/tst_map_model_manager_4.py iotbx/regression/tst_map_model_manager_9_remove_origin_shift_and_unit_cell_crystal_symmetry.py iotbx/regression/tst_map_model_manager_9_remove_origin_shift_and_unit_cell_crystal_symmetry_cif.py iotbx/regression/tst_map_model_manager_call_consistency.py iotbx/regression/tst_map_model_manager_cif.py iotbx/regression/tst_map_model_manager_external_sharpening_7.py iotbx/regression/tst_map_model_manager_half_map_sharpening_6.py iotbx/regression/tst_map_model_manager_local_resolution_10.py iotbx/regression/tst_map_model_manager_model_sharpening_5.py iotbx/regression/tst_map_model_manager_model_sharpening_5_cif.py iotbx/regression/tst_map_model_manager_tls_from_map_8.py iotbx/regression/tst_map_tools.py iotbx/regression/tst_merging_statistics.py iotbx/regression/tst_miller_sort_asu.py iotbx/regression/tst_mmcif_input.py iotbx/regression/tst_mmcif_multimodel.py iotbx/regression/tst_mmcif_segids.py iotbx/regression/tst_mmcif_to_from_hierarchy.py iotbx/regression/tst_mrc_io.py iotbx/regression/tst_mtz_as_cif.py iotbx/regression/tst_patterson.py iotbx/regression/tst_pdb_as_cif.py iotbx/regression/tst_pdb_as_fasta.py iotbx/regression/tst_pdb_cif_cells.py iotbx/regression/tst_pdb_cif_inputs.py iotbx/regression/tst_pdb_link_records.py iotbx/regression/tst_pdbx_mmcif_tutorial.py iotbx/regression/tst_phases.py iotbx/regression/tst_phil.py iotbx/regression/tst_poscar.py iotbx/regression/tst_reflection_file_editor.py iotbx/regression/tst_reflection_file_reader.py iotbx/regression/tst_reflection_file_utils.py iotbx/regression/tst_reflection_statistics.py iotbx/regression/tst_reindex.py iotbx/regression/tst_restraints_merge.py iotbx/regression/tst_selected_hierarchy_flip.py iotbx/regression/tst_show_systematic_absences.py iotbx/regression/tst_simple_map_coefficients.py iotbx/regression/tst_simple_parser.py iotbx/regression/tst_sort_atoms.py iotbx/regression/tst_split_data_cif.py iotbx/regression/tst_split_models.py iotbx/regression/tst_symmetry.py iotbx/regression/tst_wildcard.py iotbx/regression/tst_xray_scale.py iotbx/regression/ncs/ iotbx/regression/ncs/tst_mmcif_biomt_reduction_output.py iotbx/regression/ncs/tst_mtrix_biomt_cmdl.py iotbx/regression/ncs/tst_ncs.py iotbx/regression/ncs/tst_ncs_groups_preprocessing.py iotbx/regression/ncs/tst_ncs_input.py iotbx/regression/ncs/tst_ncs_reordered_chains.py iotbx/regression/ncs/tst_ncs_search_broken_chain.py iotbx/regression/ncs/tst_ncs_search_ligs.py iotbx/regression/ncs/tst_ncs_search_shortcut_1.py iotbx/regression/ncs/tst_ncs_user_selections.py iotbx/regression/ncs/tst_ncs_without_validation.py iotbx/regression/secondary_structure/ iotbx/regression/secondary_structure/tst_annotation.py iotbx/regression/secondary_structure/tst_annotation_long.py iotbx/regression/secondary_structure/tst_sheet.py iotbx/scalepack/ iotbx/scalepack/tst_merge.py iotbx/scalepack/tst_no_merge_original_index.py iotbx/shelx/ iotbx/shelx/tst_fvar_encoding.py iotbx/shelx/tst_hklf.py iotbx/shelx/tst_lex_parse_build.py iotbx/shelx/tst_writer.py iotbx/xds/ iotbx/xds/tests/ iotbx/xds/tests/tst_integrate_hkl.py iotbx/xds/tests/tst_spots_xds.py iotbx/xds/tests/tst_xds_inp.py iotbx/xds/tests/tst_xparm.py iotbx/xplor/ iotbx/xplor/tst_xplormap.py sent 2,505,529 bytes received 3,182 bytes 5,017,422.00 bytes/sec total size is 2,492,940 speedup is 0.99 building file list ... done libtbx/tst_add_docstrings_with_ai.py libtbx/tst_binary_search.py libtbx/tst_citations.py libtbx/tst_containers.py libtbx/tst_dlite.py libtbx/tst_easy_mp.py libtbx/tst_easy_mp_multicore.py libtbx/tst_easy_mp_state.py libtbx/tst_easy_pickle.py libtbx/tst_find_unused_imports.py libtbx/tst_fully_buffered_timeout.py libtbx/tst_mahalanobis.py libtbx/tst_math_utils.py libtbx/tst_object_oriented_patterns.py libtbx/tst_path.py libtbx/tst_program_template.py libtbx/tst_python_code_parsing.py libtbx/tst_representation.py libtbx/tst_run_tests_parallel_retry.py libtbx/tst_run_tests_parallel_unique_dirs.py libtbx/tst_runtime_utils.py libtbx/tst_scheduling.py libtbx/tst_str_utils.py libtbx/tst_thread_utils.py libtbx/tst_topological_sort.py libtbx/tst_utils.py libtbx/tst_version.py libtbx/tst_word_index_generator.py libtbx/tst_xmlrpc_utils.py libtbx/langchain/ libtbx/langchain/agent/ libtbx/langchain/agent/tst_agent_enhancements.py libtbx/langchain/tests/ libtbx/langchain/tests/tst_abort_message_all_stops.py libtbx/langchain/tests/tst_action_item_1.py libtbx/langchain/tests/tst_advice_preprocessing.py libtbx/langchain/tests/tst_api_schema.py libtbx/langchain/tests/tst_audit_fixes.py libtbx/langchain/tests/tst_autosol_bugs.py libtbx/langchain/tests/tst_backward_compat.py libtbx/langchain/tests/tst_best_files_tracker.py libtbx/langchain/tests/tst_command_builder.py libtbx/langchain/tests/tst_contract_compliance.py libtbx/langchain/tests/tst_copies_tracking.py libtbx/langchain/tests/tst_decision_flow.py libtbx/langchain/tests/tst_diagnosed_failure_stop.py libtbx/langchain/tests/tst_directive_extractor.py libtbx/langchain/tests/tst_directive_validator.py libtbx/langchain/tests/tst_directives_integration.py libtbx/langchain/tests/tst_display_data_model.py libtbx/langchain/tests/tst_docs_tools.py libtbx/langchain/tests/tst_dry_run.py libtbx/langchain/tests/tst_error_analyzer.py libtbx/langchain/tests/tst_error_classifier.py libtbx/langchain/tests/tst_event_formatter_file_categories.py libtbx/langchain/tests/tst_event_system.py libtbx/langchain/tests/tst_explanation_prompts.py libtbx/langchain/tests/tst_fabricated_stop_condition.py libtbx/langchain/tests/tst_file_categorization.py libtbx/langchain/tests/tst_file_utils.py libtbx/langchain/tests/tst_fix_verification.py libtbx/langchain/tests/tst_gate_evaluator.py libtbx/langchain/tests/tst_halfmap_sigmaa_inventory.py libtbx/langchain/tests/tst_hardcoded_cleanup.py libtbx/langchain/tests/tst_history_analysis.py libtbx/langchain/tests/tst_hypothesis_evaluator.py libtbx/langchain/tests/tst_integration.py libtbx/langchain/tests/tst_intent_classifier.py libtbx/langchain/tests/tst_langchain_tools.py libtbx/langchain/tests/tst_log_extractor.py libtbx/langchain/tests/tst_metric_patterns.py libtbx/langchain/tests/tst_metrics_analyzer.py libtbx/langchain/tests/tst_mtz_crosscheck.py libtbx/langchain/tests/tst_mtz_phases_session_blocking.py libtbx/langchain/tests/tst_n_bugs.py libtbx/langchain/tests/tst_new_programs.py libtbx/langchain/tests/tst_old_client_compat.py libtbx/langchain/tests/tst_pattern_manager.py libtbx/langchain/tests/tst_perceive_stop_checks.py libtbx/langchain/tests/tst_phase0_static_audit.py libtbx/langchain/tests/tst_phase1_contract_gaps.py libtbx/langchain/tests/tst_phase2_path_consistency.py libtbx/langchain/tests/tst_phase3_bug5.py libtbx/langchain/tests/tst_phase3_serialization_symmetry.py libtbx/langchain/tests/tst_phase4_history_flags.py libtbx/langchain/tests/tst_phase5_error_classification.py libtbx/langchain/tests/tst_phase6_category_consumer.py libtbx/langchain/tests/tst_phase7_routing_simulation.py libtbx/langchain/tests/tst_phase8_command_building.py libtbx/langchain/tests/tst_phase9_llm_perturbation.py libtbx/langchain/tests/tst_phaser_multimodel.py libtbx/langchain/tests/tst_phil_validation.py libtbx/langchain/tests/tst_plan_generator.py libtbx/langchain/tests/tst_plan_schema.py libtbx/langchain/tests/tst_program_registration.py libtbx/langchain/tests/tst_sanity_checker.py libtbx/langchain/tests/tst_scenario_tracer.py libtbx/langchain/tests/tst_session_directives.py libtbx/langchain/tests/tst_session_summary.py libtbx/langchain/tests/tst_session_tools.py libtbx/langchain/tests/tst_shared_code_imports.py libtbx/langchain/tests/tst_silent_stop_abort_messages.py libtbx/langchain/tests/tst_state_serialization.py libtbx/langchain/tests/tst_stop_condition_fix.py libtbx/langchain/tests/tst_stop_feedback_api_plan_command.py libtbx/langchain/tests/tst_stop_reason_codes.py libtbx/langchain/tests/tst_stop_reason_prompt.py libtbx/langchain/tests/tst_strategy_memory.py libtbx/langchain/tests/tst_structure_model.py libtbx/langchain/tests/tst_summary_display.py libtbx/langchain/tests/tst_template.py libtbx/langchain/tests/tst_thinking_agent.py libtbx/langchain/tests/tst_thinking_defense.py libtbx/langchain/tests/tst_transport.py libtbx/langchain/tests/tst_utils.py libtbx/langchain/tests/tst_v112_13_fixes.py libtbx/langchain/tests/tst_validate_file_overrides.py libtbx/langchain/tests/tst_validation_history.py libtbx/langchain/tests/tst_workflow_complete_stop.py libtbx/langchain/tests/tst_workflow_state.py libtbx/langchain/tests/tst_yaml_config.py libtbx/langchain/tests/tst_yaml_tools.py libtbx/phil/ libtbx/phil/tst.py libtbx/phil/tst_experimental.py libtbx/phil/tst_interface.py libtbx/phil/tst_tokenizer.py libtbx/queuing_system_utils/ libtbx/queuing_system_utils/tst.py sent 2,442,731 bytes received 2,383 bytes 4,890,228.00 bytes/sec total size is 2,432,426 speedup is 0.99 building file list ... done mmtbx/atomic_environment_vectors/ mmtbx/atomic_environment_vectors/tst.py mmtbx/building/ mmtbx/building/tst_extend_sidechains.py mmtbx/building/tst_extend_sidechains_2.py mmtbx/building/ligands/ mmtbx/building/ligands/tst_00.py mmtbx/building/ligands/tst_00_mmtbx_building_ligands.map mmtbx/bulk_solvent/ mmtbx/bulk_solvent/tst_aniso_scaler.py mmtbx/bulk_solvent/tst_bulk_solvent_and_scaling.py mmtbx/bulk_solvent/tst_fit_kexpb_to_ktotal.py mmtbx/bulk_solvent/tst_flat_nonuniform.py mmtbx/bulk_solvent/tst_kb_sol_u_star_fd.py mmtbx/bulk_solvent/tst_mosaic.py mmtbx/bulk_solvent/tst_scaler.py mmtbx/chemical_components/ mmtbx/chemical_components/tst.py mmtbx/conformation_dependent_library/ mmtbx/conformation_dependent_library/tst_cdl.py mmtbx/conformation_dependent_library/tst_cdl_esd.py mmtbx/conformation_dependent_library/tst_cdl_nucleotides.py mmtbx/conformation_dependent_library/tst_cis_c_n_ca.py mmtbx/conformation_dependent_library/tst_enol_peptide.py mmtbx/conformation_dependent_library/tst_hpdl.py mmtbx/conformation_dependent_library/tst_mcl_01.py mmtbx/conformation_dependent_library/tst_mcl_02.py mmtbx/conformation_dependent_library/tst_mcl_03.py mmtbx/conformation_dependent_library/tst_multi_residue_rna.py mmtbx/conformation_dependent_library/tst_mutli_residue.py mmtbx/conformation_dependent_library/tst_omega_cdl.py mmtbx/conformation_dependent_library/tst_pH_mechanism.py mmtbx/conformation_dependent_library/tst_poly_ca_multi_residue.py mmtbx/conformation_dependent_library/tst_rdl.py mmtbx/conformation_dependent_library/tst_rna_dna_fragments.py mmtbx/density_modification/ mmtbx/density_modification/tst_density_modification.py mmtbx/disorder/ mmtbx/disorder/tst.py mmtbx/disorder/tst_analyze_model.py mmtbx/disorder/tst_backbone.py mmtbx/dynamics/ mmtbx/dynamics/tst_cartesian_dynamics.py mmtbx/dynamics/tst_sa.py mmtbx/geometry/ mmtbx/geometry/tests/ mmtbx/geometry/tests/tst_altloc.py mmtbx/geometry/tests/tst_asa.py mmtbx/geometry/tests/tst_clash.py mmtbx/geometry/tests/tst_indexing.py mmtbx/geometry/tests/tst_shared_types.py mmtbx/geometry/tests/tst_sphere_surface_sampling.py mmtbx/geometry/tests/tst_topology.py mmtbx/geometry_restraints/ mmtbx/geometry_restraints/tst_c_beta_restraints.py mmtbx/geometry_restraints/tst_geo_file_parsing.py mmtbx/geometry_restraints/tst_manager.py mmtbx/geometry_restraints/tst_ramachandran.py mmtbx/geometry_restraints/tst_reference_coordinate.py mmtbx/geometry_restraints/tst_reference_coordinate2.py mmtbx/geometry_restraints/torsion_restraints/ mmtbx/geometry_restraints/torsion_restraints/tst_reference_model.py mmtbx/geometry_restraints/torsion_restraints/tst_reference_model_ligands.py mmtbx/geometry_restraints/torsion_restraints/tst_torsion_ncs.py mmtbx/hydrogens/ mmtbx/hydrogens/tst.py mmtbx/hydrogens/tst_add_hydrogen.py mmtbx/hydrogens/tst_add_hydrogen_0.py mmtbx/hydrogens/tst_add_hydrogen_1.py mmtbx/hydrogens/tst_add_hydrogen_2.py mmtbx/hydrogens/tst_add_hydrogen_3.py mmtbx/hydrogens/tst_add_hydrogen_4.py mmtbx/hydrogens/tst_add_hydrogen_5.py mmtbx/hydrogens/tst_add_hydrogen_6.py mmtbx/hydrogens/tst_add_hydrogen_7.py mmtbx/hydrogens/tst_add_hydrogen_8.py mmtbx/hydrogens/tst_add_hydrogen_9.py mmtbx/hydrogens/tst_add_hydrogen_time.py mmtbx/hydrogens/tst_connectivity.py mmtbx/hydrogens/tst_parameterization_1.py mmtbx/hydrogens/tst_parameterization_2.py mmtbx/hydrogens/tst_parameterization_3.py mmtbx/hydrogens/tst_parameterization_4.py mmtbx/hydrogens/tst_parameterization_5.py mmtbx/hydrogens/tst_parameterization_6.py mmtbx/hydrogens/tst_parameterization_7.py mmtbx/hydrogens/tst_parameterization_8.py mmtbx/hydrogens/tst_parameterization_9.py mmtbx/hydrogens/tst_riding_coefficients.py mmtbx/hydrogens/tst_riding_fd_1.py mmtbx/hydrogens/tst_riding_fd_2.py mmtbx/hydrogens/tst_riding_fd_3.py mmtbx/hydrogens/tst_riding_fd_4.py mmtbx/hydrogens/tst_riding_fd_5.py mmtbx/hydrogens/tst_riding_manager.py mmtbx/hydrogens/tst_riding_minimize.py mmtbx/hydrogens/tst_validate_H.py mmtbx/ias/ mmtbx/ias/tst_ias.py mmtbx/idealized_aa_residues/ mmtbx/idealized_aa_residues/tst.py mmtbx/ions/ mmtbx/ions/tst_environment.py mmtbx/ions/tst_geometries.py mmtbx/ions/tst_parameters.py mmtbx/ions/tst_pick_approx_zn.py mmtbx/ions/tst_pick_ca.py mmtbx/ions/tst_pick_ca_svm.py mmtbx/ions/tst_pick_k.py mmtbx/ions/tst_pick_mg.py mmtbx/ions/tst_pickle.py mmtbx/ions/tst_symmetry_axis.py mmtbx/ions/tst_utils.py mmtbx/ions/tst_validate_ca.py mmtbx/ions/tst_validate_mg.py mmtbx/ions/svm/ mmtbx/ions/svm/tst_classifier_01.py mmtbx/ions/svm/tst_classifier_02.py mmtbx/ligands/ mmtbx/ligands/tst_electron_scripting.py mmtbx/ligands/tst_ready_set_utils.py mmtbx/ligands/tst_xtal_screens.py mmtbx/maps/ mmtbx/maps/tst_composite_omit_map.py mmtbx/maps/tst_composite_omit_map_2.py mmtbx/maps/tst_composite_omit_map_3.py mmtbx/maps/tst_correlation.py mmtbx/maps/tst_map_model_cc_and_vals_per_atom_xtal.py mmtbx/masks/ mmtbx/masks/tst_asu_mask.py mmtbx/masks/tst_mask.cpp mmtbx/masks/tst_masks.py mmtbx/max_lik/ mmtbx/max_lik/tst_max_lik.py mmtbx/max_lik/tst_maxlik.py mmtbx/monomer_library/ mmtbx/monomer_library/tst_all_cif_files.py mmtbx/monomer_library/tst_carbo_linking.py mmtbx/monomer_library/tst_chg.py mmtbx/monomer_library/tst_cif_triage.py mmtbx/monomer_library/tst_cif_types.py mmtbx/monomer_library/tst_correct_hydrogens.py mmtbx/monomer_library/tst_deuterium_terminii.py mmtbx/monomer_library/tst_geo_reduce_for_tardy.py mmtbx/monomer_library/tst_glyco_coordination.py mmtbx/monomer_library/tst_glyco_hand.py mmtbx/monomer_library/tst_idealized_aa.py mmtbx/monomer_library/tst_iron_sulfur_clusters.py mmtbx/monomer_library/tst_linking.py mmtbx/monomer_library/tst_metal_coordination.py mmtbx/monomer_library/tst_motif.py mmtbx/monomer_library/tst_neutron_distance.py mmtbx/monomer_library/tst_paral_geo.py mmtbx/monomer_library/tst_pdb_interpretation.py mmtbx/monomer_library/tst_pdb_interpretation_2.py mmtbx/monomer_library/tst_pdb_interpretation_3.py mmtbx/monomer_library/tst_pdb_interpretation_4.py mmtbx/monomer_library/tst_pdb_interpretation_5.py mmtbx/monomer_library/tst_pdb_interpretation_ncs_processing.py mmtbx/monomer_library/tst_protein_interpretation.py mmtbx/monomer_library/tst_rna_dna_interpretation.py mmtbx/monomer_library/tst_rna_sugar_pucker_analysis.py mmtbx/monomer_library/tst_rotamer_utils.py mmtbx/monomer_library/tst_selection.py mmtbx/monomer_library/tst_server.py mmtbx/monomer_library/tst_superpose_ideal.py mmtbx/monomer_library/tst_tyr_from_gly_and_bnz.py mmtbx/monomer_library/tst_user_supplied_library.py mmtbx/nci/ mmtbx/nci/tst_hbond.py mmtbx/pair_interaction/ mmtbx/pair_interaction/tst_00.py mmtbx/pair_interaction/tst_01.py mmtbx/pair_interaction/tst_02.py mmtbx/pair_interaction/tst_03.py mmtbx/pair_interaction/tst_04.py mmtbx/pair_interaction/tst_05.py mmtbx/polygon/ mmtbx/polygon/tst.py mmtbx/polygon/tst_gui.py mmtbx/polygon/tst_polygon_data.py mmtbx/probe/ mmtbx/probe/tst_mmtbx_probe_ext.py mmtbx/probe/tst_probe.cpp mmtbx/real_space/ mmtbx/real_space/tst.py mmtbx/reduce/ mmtbx/reduce/tst_mmtbx_reduce_ext.py mmtbx/refinement/ mmtbx/refinement/tst_anomalous_scatterer_groups.py mmtbx/refinement/tst_fit_rotamers.py mmtbx/refinement/tst_group.py mmtbx/refinement/tst_group_2.py mmtbx/refinement/tst_misc.py mmtbx/refinement/tst_occupancy_selections.py mmtbx/refinement/tst_real_space_simple.py mmtbx/refinement/tst_refinement_flags.py mmtbx/refinement/tst_rigid_body.py mmtbx/refinement/tst_rigid_body_groups_from_pdb_chains.py mmtbx/refinement/tst_select_best_starting_model.py mmtbx/refinement/real_space/ mmtbx/refinement/real_space/tst_aa_residue_axes_and_clusters.py mmtbx/refinement/real_space/tst_fit_residue_0.py mmtbx/refinement/real_space/tst_fit_residue_0H.py mmtbx/refinement/real_space/tst_fit_residue_1.py mmtbx/refinement/real_space/tst_fit_residue_1H.py mmtbx/refinement/real_space/tst_fit_residue_2.py mmtbx/refinement/real_space/tst_fit_residue_3.py mmtbx/refinement/real_space/tst_fit_residue_4.py mmtbx/refinement/real_space/tst_fit_residue_5.py mmtbx/refinement/real_space/tst_fit_residue_6.py mmtbx/refinement/real_space/tst_fit_residue_7.py mmtbx/refinement/real_space/tst_fit_residue_full_sampling.py mmtbx/refinement/real_space/tst_fit_residues_1.py mmtbx/refinement/real_space/tst_fit_residues_1H.py mmtbx/refinement/real_space/tst_fit_residues_2.py mmtbx/refinement/real_space/tst_fit_residues_3.py mmtbx/refinement/real_space/tst_fit_residues_4.py mmtbx/refinement/real_space/tst_fit_residues_5.py mmtbx/refinement/real_space/tst_fit_residues_6.py mmtbx/refinement/real_space/tst_fit_residues_selection.py mmtbx/refinement/real_space/tst_fit_water.py mmtbx/refinement/real_space/tst_individual_sites_1.py mmtbx/refinement/real_space/tst_individual_sites_2.py mmtbx/refinement/real_space/tst_individual_sites_3.py mmtbx/refinement/real_space/tst_monitor.py mmtbx/refinement/real_space/tst_rigid_body.py mmtbx/refinement/real_space/tst_weight.py mmtbx/regression/tst_add_arrows_on_plot.py mmtbx/regression/tst_add_h_to_water.py mmtbx/regression/tst_adp_restraints.py mmtbx/regression/tst_alignment.py mmtbx/regression/tst_altloc_chain_break.py mmtbx/regression/tst_altloc_remediate.py mmtbx/regression/tst_angle.py mmtbx/regression/tst_anomalous_substructure.py mmtbx/regression/tst_apply_cif_restraints.py mmtbx/regression/tst_arginine_geometry.py mmtbx/regression/tst_cc_star.py mmtbx/regression/tst_chain_comparison.py mmtbx/regression/tst_chain_comparison_cif.py mmtbx/regression/tst_cif_as_mtz_wavelengths.py mmtbx/regression/tst_cis_trans_peptide_link.py mmtbx/regression/tst_clashes.py mmtbx/regression/tst_command_line_input.py mmtbx/regression/tst_domains_from_pae.py mmtbx/regression/tst_domains_from_pae_cif.py mmtbx/regression/tst_dynamics_cli.py mmtbx/regression/tst_examples.py mmtbx/regression/tst_find_ncs.py mmtbx/regression/tst_find_ss_structure.py mmtbx/regression/tst_find_ss_structure_cif.py mmtbx/regression/tst_flipping_his.py mmtbx/regression/tst_fmodel.py mmtbx/regression/tst_fmodel_2.py mmtbx/regression/tst_fmodel_and_dm.py mmtbx/regression/tst_fmodel_fd.py mmtbx/regression/tst_fmodel_misc.py mmtbx/regression/tst_fmodel_no_cryst1.py mmtbx/regression/tst_geo_min_restraints_phil.py mmtbx/regression/tst_geometry_minimization.py mmtbx/regression/tst_helix_sheet_recs_as_pdb_files.py mmtbx/regression/tst_holton_geometry_validation.py mmtbx/regression/tst_isomorphous_difference_misc.py mmtbx/regression/tst_ligand_ncs.py mmtbx/regression/tst_loop_closure.py mmtbx/regression/tst_lrv.py mmtbx/regression/tst_map_model_cc.py mmtbx/regression/tst_map_type_parser.py mmtbx/regression/tst_maps_misc.py mmtbx/regression/tst_metal_link_1.py mmtbx/regression/tst_minimize_chain.py mmtbx/regression/tst_ml_estimate.py mmtbx/regression/tst_mmtbx_refinement_wrappers.py mmtbx/regression/tst_mmtbx_refinement_wrappers_1.py mmtbx/regression/tst_mmtbx_refinement_wrappers_2.py mmtbx/regression/tst_model_map.py mmtbx/regression/tst_model_vs_map.py mmtbx/regression/tst_model_vs_sequence.py mmtbx/regression/tst_models_to_from_chains.py mmtbx/regression/tst_msa.py mmtbx/regression/tst_mtz2map.py mmtbx/regression/tst_multi_residue_class.py mmtbx/regression/tst_origin_ids.py mmtbx/regression/tst_pdbtools.py mmtbx/regression/tst_polder.py mmtbx/regression/tst_polder_1.py mmtbx/regression/tst_polder_2.py mmtbx/regression/tst_polder_3.py mmtbx/regression/tst_polder_4.py mmtbx/regression/tst_polder_box.py mmtbx/regression/tst_polder_ccs.py mmtbx/regression/tst_probe.py mmtbx/regression/tst_process_predicted_model.py mmtbx/regression/tst_process_predicted_model_cif.py mmtbx/regression/tst_prune_model.py mmtbx/regression/tst_psi_phi_extraction.py mmtbx/regression/tst_rank_scale_map.py mmtbx/regression/tst_rdkit_utils_fragmentation.py mmtbx/regression/tst_real_space_correlation.py mmtbx/regression/tst_reduce.py mmtbx/regression/tst_reduce_cryoem_resolution.py mmtbx/regression/tst_reduce_timeout.py mmtbx/regression/tst_refine_anomalous_substructure.py mmtbx/regression/tst_regularize_from_pdb.py mmtbx/regression/tst_regularize_from_pdb_cif.py mmtbx/regression/tst_ribbons.py mmtbx/regression/tst_rigid_bond_test.py mmtbx/regression/tst_ringer.py mmtbx/regression/tst_sampled_model_density.py mmtbx/regression/tst_scattering_table.py mmtbx/regression/tst_scattering_type_registry.py mmtbx/regression/tst_schrodinger_interface.py mmtbx/regression/tst_sequence_validation.py mmtbx/regression/tst_sort_hetatms.py mmtbx/regression/tst_special_term_at_end.py mmtbx/regression/tst_statistics_output.py mmtbx/regression/tst_superpose.py mmtbx/regression/tst_table_one.py mmtbx/regression/tst_utils.py mmtbx/regression/tst_validate_ligands.py mmtbx/regression/tst_validate_ligands_2.py mmtbx/regression/tst_validation_summary.py mmtbx/regression/discamb/ mmtbx/regression/discamb/tst_IAM_discamb_vs_cctbx_1.py mmtbx/regression/discamb/tst_IAM_discamb_vs_cctbx_2.py mmtbx/regression/discamb/tst_IAM_discamb_vs_cctbx_3.py mmtbx/regression/discamb/tst_IAM_discamb_vs_cctbx_4.py mmtbx/regression/discamb/tst_IAM_discamb_vs_cctbx_5.py mmtbx/regression/discamb/tst_IAM_gradients_1.py mmtbx/regression/discamb/tst_fmodel_fd_discamb.py mmtbx/regression/discamb/tst_fmodel_fd_discamb_taam.py mmtbx/regression/discamb/tst_fmodel_fd_discamb_taam_tyr.py mmtbx/regression/discamb/tst_olex2_vs_pydiscamb_TAAM_1.py mmtbx/regression/discamb/tst_olex2_vs_pydiscamb_TAAM_2.py mmtbx/regression/fix_cablam/ mmtbx/regression/fix_cablam/tst_basic_cl_operations.py mmtbx/regression/fix_cablam/tst_insertion_codes.py mmtbx/regression/fix_cablam/tst_one_resid_rotation.py mmtbx/regression/fix_cablam/tst_single_outliers_surroundings.py mmtbx/regression/model/ mmtbx/regression/model/tst_model.py mmtbx/regression/model/tst_model_2.py mmtbx/regression/model/tst_model_biomt_mtrix.py mmtbx/regression/model/tst_model_biomt_mtrix_2.py mmtbx/regression/model/tst_model_cart_ref_restraints.py mmtbx/regression/model/tst_model_dedeuterate.py mmtbx/regression/model/tst_model_get_vdw_radii.py mmtbx/regression/model/tst_model_merge.py mmtbx/regression/model/tst_model_mtrix.py mmtbx/regression/model/tst_model_ncs.py mmtbx/regression/model/tst_model_neutralize_scatterers.py mmtbx/regression/model/tst_model_pairs_within.py mmtbx/regression/model/tst_model_ramachandran.py mmtbx/regression/model/tst_model_remove_alternative_conformations.py mmtbx/regression/model/tst_model_set_hydrogen_bond_length.py mmtbx/regression/model/tst_model_symmetry.py mmtbx/regression/model/tst_model_tors_ref_restraints.py mmtbx/regression/model/tst_model_utils_merge_models.py mmtbx/regression/model/tst_restrain_selection_to_self_or_neighbors.py mmtbx/regression/model_idealization/ mmtbx/regression/model_idealization/tst_ext_map_01.py mmtbx/regression/model_idealization/tst_ligands.py mmtbx/regression/model_idealization/tst_nomap_01.py mmtbx/regression/model_idealization/tst_nomap_02.py mmtbx/regression/model_idealization/tst_nomap_03.py mmtbx/regression/model_idealization/tst_nomap_04.py mmtbx/regression/model_idealization/tst_with_mtz.py mmtbx/regression/model_idealization/tst_withmap_01.py mmtbx/regression/model_idealization/tst_withmap_02.py mmtbx/regression/model_idealization/tst_withmap_03.py mmtbx/regression/model_idealization/tst_withmap_04.py mmtbx/regression/model_idealization/tst_withmap_05.py mmtbx/regression/model_idealization/tst_withmap_06.py mmtbx/regression/mtz/ mmtbx/regression/mtz/tst_xtriage_fmodel.mtz mmtbx/regression/ncs/ mmtbx/regression/ncs/tst_geometry_minimization_ncs_constraints.py mmtbx/regression/ncs/tst_minimization_ncs_constraints.py mmtbx/regression/ncs/tst_minimization_ncs_constraints2.py mmtbx/regression/ncs/tst_minimization_ncs_constraints3.py mmtbx/regression/ncs/tst_minimization_ncs_constraints_real_space.py mmtbx/regression/ncs/tst_ncs_restraints_group_list.py mmtbx/regression/ncs/tst_ncs_search.py mmtbx/regression/ncs/tst_ncs_search_flips.py mmtbx/regression/ncs/tst_ncs_utils.py mmtbx/regression/ncs/tst_restraints.py mmtbx/regression/pdb_interpretation/ mmtbx/regression/pdb_interpretation/tst_custom_nb_sym_excl.py mmtbx/regression/pdb_interpretation/tst_edits.py mmtbx/regression/pdb_interpretation/tst_edits_actions.py mmtbx/regression/pdb_interpretation/tst_tardy_geo.py mmtbx/regression/pdb_interpretation/tst_using_ncs_1.py mmtbx/regression/pdb_interpretation/tst_using_ncs_2.py mmtbx/regression/real_space_refine_chain/ mmtbx/regression/real_space_refine_chain/tst_00.py mmtbx/regression/real_space_refine_chain/tst_01.py mmtbx/regression/tls/ mmtbx/regression/tls/tst_formula_t_S_10_vs_11_2igd.py mmtbx/regression/tls/tst_formula_t_S_10_vs_11_4muy.py mmtbx/regression/tls/tst_get_t_scheme.py mmtbx/regression/tls/tst_tls.py mmtbx/regression/tls/tst_tls_analysis.py mmtbx/regression/tls/tst_tls_as_xyz.py mmtbx/regression/tls/tst_tls_optimise_amplitudes.py mmtbx/regression/tls/tst_tls_refinement_fft.py mmtbx/regression/tls/tst_tls_utils.py mmtbx/regression/tls/tst_u_tls_vs_u_ens_00.py mmtbx/regression/tls/tst_u_tls_vs_u_ens_01.py mmtbx/regression/tls/tst_u_tls_vs_u_ens_02.py mmtbx/regression/tls/tst_u_tls_vs_u_ens_03.py mmtbx/regression/tls/tst_u_tls_vs_u_ens_04.py mmtbx/regression/tncs/ mmtbx/regression/tncs/tst_epsfac_and_radius.py mmtbx/regression/tncs/tst_fd.py mmtbx/regression/tncs/tst_moments.py mmtbx/regression/tncs/tst_pair.py mmtbx/ringer/ mmtbx/ringer/tst_em_rscc.py mmtbx/ringer/tst_emringer.py mmtbx/rotamer/ mmtbx/rotamer/tst_geostd_vs_sidechain_angles_props.py mmtbx/rotamer/tst_rotamer_eval.py mmtbx/rsr/ mmtbx/rsr/tst.py mmtbx/scaling/ mmtbx/scaling/tst_absences.py mmtbx/scaling/tst_bayesian_estimator.py mmtbx/scaling/tst_massage_data.py mmtbx/scaling/tst_mean_f_rms_f.py mmtbx/scaling/tst_outlier.py mmtbx/scaling/tst_plan_sad_experiment.py mmtbx/scaling/tst_scaling.py mmtbx/scaling/tst_sigmaa.py mmtbx/scaling/tst_xtriage.py mmtbx/scaling/tst_xtriage_twin_analyses.py mmtbx/secondary_structure/ mmtbx/secondary_structure/tst.py mmtbx/secondary_structure/tst_insertion_codes.py mmtbx/secondary_structure/tst_segid.py mmtbx/secondary_structure/build/ mmtbx/secondary_structure/build/tst_1.py mmtbx/secondary_structure/build/tst_2.py mmtbx/secondary_structure/build/tst_3.py mmtbx/secondary_structure/build/tst_io.py mmtbx/secondary_structure/build/tst_ss_id_ncs.py mmtbx/utils/ mmtbx/utils/tst_switch_rotamers.py mmtbx/validation/ mmtbx/validation/regression/ mmtbx/validation/regression/tst_cablam.py mmtbx/validation/regression/tst_cablam_2.py mmtbx/validation/regression/tst_cbetadev.py mmtbx/validation/regression/tst_cbetadev_02.py mmtbx/validation/regression/tst_chiral_validation.py mmtbx/validation/regression/tst_clashscore.py mmtbx/validation/regression/tst_clashscore_2.py mmtbx/validation/regression/tst_do_flips_clashscore.py mmtbx/validation/regression/tst_experimental.py mmtbx/validation/regression/tst_find_region_max_value.py mmtbx/validation/regression/tst_hydrogen_addition_clashscore.py mmtbx/validation/regression/tst_keep_hydrogens.py mmtbx/validation/regression/tst_model_properties.py mmtbx/validation/regression/tst_molprobity_1.py mmtbx/validation/regression/tst_molprobity_2.py mmtbx/validation/regression/tst_molprobity_3.py mmtbx/validation/regression/tst_molprobity_4.py mmtbx/validation/regression/tst_molprobity_5.py mmtbx/validation/regression/tst_molprobity_arguments.py mmtbx/validation/regression/tst_mp_geo.py mmtbx/validation/regression/tst_mp_geo_chiral_volume_cases.py mmtbx/validation/regression/tst_mp_geo_endtoend.py mmtbx/validation/regression/tst_mp_validate_bonds.py mmtbx/validation/regression/tst_omegalyze.py mmtbx/validation/regression/tst_rama_z_01.py mmtbx/validation/regression/tst_rama_z_02.py mmtbx/validation/regression/tst_ramalyze.py mmtbx/validation/regression/tst_ramalyze2.py mmtbx/validation/regression/tst_ramalyze_rare.py mmtbx/validation/regression/tst_restraints.py mmtbx/validation/regression/tst_rna_validate.py mmtbx/validation/regression/tst_rotalyze.py mmtbx/validation/regression/tst_suitename.py mmtbx/validation/regression/tst_symmetry_SS.py mmtbx/validation/regression/tst_undowser.py mmtbx/validation/regression/tst_undowser2.py mmtbx/validation/regression/tst_waters.py mmtbx/wwpdb/ mmtbx/wwpdb/tst_rcsb_entry_request.py mmtbx/wwpdb/tst_rcsb_web_services.py sent 7,764,042 bytes received 8,514 bytes 15,545,112.00 bytes/sec total size is 7,731,965 speedup is 0.99 building file list ... done omptbx/ omptbx/tst.py sent 1,309 bytes received 38 bytes 2,694.00 bytes/sec total size is 1,175 speedup is 0.87 building file list ... done rstbx/bpcx/ rstbx/bpcx/detector_model/ rstbx/bpcx/detector_model/tst_detector_model.py rstbx/cftbx/ rstbx/cftbx/tst_coordinate_frame_converter.py rstbx/diffraction/ rstbx/diffraction/tst_ewald_sphere.py rstbx/diffraction/tst_partial_derivatives.py rstbx/diffraction/tst_predict.py rstbx/diffraction/fastbragg/ rstbx/diffraction/fastbragg/tst_bragg_minimal.py rstbx/diffraction/fastbragg/tst_utils_clustering.py rstbx/dps_core/ rstbx/dps_core/tst_iotbx_converter.py rstbx/indexing/ rstbx/indexing/tst_auto_monoscan.py rstbx/indexing/tst_dataset1.py rstbx/simage/ rstbx/simage/tst.py rstbx/simulation/ rstbx/simulation/tst_xfel1_simple.py rstbx/sublattice_support/ rstbx/sublattice_support/tst_sublattice.py rstbx/viewer/ rstbx/viewer/tst.py sent 181,045 bytes received 311 bytes 362,712.00 bytes/sec total size is 179,407 speedup is 0.99 building file list ... done scitbx/array_family/ scitbx/array_family/tst_accessors.cpp scitbx/array_family/tst_af_1.cpp scitbx/array_family/tst_af_2.cpp scitbx/array_family/tst_af_3.cpp scitbx/array_family/tst_af_4.cpp scitbx/array_family/tst_af_5.cpp scitbx/array_family/tst_af_helpers.cpp scitbx/array_family/tst_mat3.cpp scitbx/array_family/tst_optional_copy.cpp scitbx/array_family/tst_rectangular_full_packed.cpp scitbx/array_family/tst_ref_matrix_facet.cpp scitbx/array_family/tst_sym_mat3.cpp scitbx/array_family/tst_unsigned_float_arithmetic.cpp scitbx/array_family/tst_vec3.cpp scitbx/array_family/boost_python/ scitbx/array_family/boost_python/tst_cost_of_m_handle_in_af_shared.py scitbx/array_family/boost_python/tst_flex.py scitbx/array_family/boost_python/tst_flex_argument_passing.py scitbx/array_family/boost_python/tst_integer_offsets_vs_pointers.py scitbx/array_family/boost_python/tst_numpy_bridge.py scitbx/array_family/boost_python/tst_shared.py scitbx/array_family/boost_python/tst_smart_selection.py scitbx/dtmin/ scitbx/dtmin/regression/ scitbx/dtmin/regression/tst_dtmin_basic.py scitbx/dtmin/regression/tst_dtmin_booth.py scitbx/dtmin/regression/tst_dtmin_twisted.py scitbx/error/ scitbx/error/tst_error.cpp scitbx/error/tst_error.py scitbx/fftpack/ scitbx/fftpack/boost_python/ scitbx/fftpack/boost_python/tst_fftpack.py scitbx/fftpack/timing/ scitbx/fftpack/timing/tst3d.cpp scitbx/glmtbx/ scitbx/glmtbx/tests/ scitbx/glmtbx/tests/tst.py scitbx/graph/ scitbx/graph/tst_rigidity.py scitbx/graph/tst_tardy_tree.py scitbx/graph/tst_tardy_tree_find_paths.py scitbx/graph/tst_utils.py scitbx/graphics_utils/ scitbx/graphics_utils/tst.py scitbx/iso_surface/ scitbx/iso_surface/tst_iso_surface.m scitbx/iso_surface/tst_iso_surface.py scitbx/lbfgs/ scitbx/lbfgs/tst_curvatures.py scitbx/lbfgs/tst_ext.py scitbx/lbfgs/tst_func_free_line_search.py scitbx/lbfgs/tst_lbfgs.cpp scitbx/lbfgs/tst_lbfgs_fem.py scitbx/lbfgs/tst_mpi_split_evaluator.py scitbx/lbfgsb/ scitbx/lbfgsb/boost_python/ scitbx/lbfgsb/boost_python/tst_fit_cdf.py scitbx/lbfgsb/boost_python/tst_lbfgsb.py scitbx/linalg/ scitbx/linalg/tests/ scitbx/linalg/tests/tst_cholesky.py scitbx/linalg/tests/tst_eigensystem.py scitbx/linalg/tests/tst_lapack_dsyev.py scitbx/linalg/tests/tst_lapack_svd.py scitbx/linalg/tests/tst_matrix.py scitbx/linalg/tests/tst_svd.py scitbx/lstbx/ scitbx/lstbx/tests/ scitbx/lstbx/tests/tst_normal_equations.nb scitbx/lstbx/tests/tst_normal_equations.py scitbx/math/ scitbx/math/tst_2d_zernike.py scitbx/math/tst_bessel_zeros.py scitbx/math/tst_multivariate_moments.py scitbx/math/tst_so3_lie_algebra.py scitbx/math/tst_undirected_graph.py scitbx/math/tst_zernike.py scitbx/math/tst_zernike_mom.py scitbx/math/tests/ scitbx/math/tests/tst.cpp scitbx/math/tests/tst_angle_derivative.py scitbx/math/tests/tst_bessel.py scitbx/math/tests/tst_clustering.py scitbx/math/tests/tst_cubic_equation.py scitbx/math/tests/tst_curve_fitting.py scitbx/math/tests/tst_dmatrix.py scitbx/math/tests/tst_error_propagation_matrix_inverse.py scitbx/math/tests/tst_euler_angles.py scitbx/math/tests/tst_exp_functions.py scitbx/math/tests/tst_fit_peak.py scitbx/math/tests/tst_fit_quadratic_function.py scitbx/math/tests/tst_g_function.py scitbx/math/tests/tst_gaussian.py scitbx/math/tests/tst_gaussian_fit_1d_analytical.py scitbx/math/tests/tst_gcd.py scitbx/math/tests/tst_halton.py scitbx/math/tests/tst_line_search.py scitbx/math/tests/tst_math.py scitbx/math/tests/tst_minimum_covering_ellipsoid.py scitbx/math/tests/tst_orthonormal_basis.py scitbx/math/tests/tst_periodogram.py scitbx/math/tests/tst_quadrature.py scitbx/math/tests/tst_r3_rotation.py scitbx/math/tests/tst_resample.py scitbx/math/tests/tst_similarity_indices.py scitbx/math/tests/tst_superpose.py scitbx/math/tests/tst_tetrahedron.py scitbx/math/tests/tst_uniform_rotation_matrix.py scitbx/math/tests/tst_weighted_correlation.py scitbx/matrix/ scitbx/matrix/tests/ scitbx/matrix/tests/tst_cholesky.cpp scitbx/matrix/tests/tst_givens.cpp scitbx/matrix/tests/tst_householder.cpp scitbx/matrix/tests/tst_householder.nb scitbx/matrix/tests/tst_householder.py scitbx/matrix/tests/tst_row_echelon.py scitbx/matrix/tests/tst_svd.cpp scitbx/matrix/tests/tst_svd.nb scitbx/matrix/tests/tst_svd_accuracy.nb scitbx/minpack/ scitbx/minpack/tst.py scitbx/python_utils/ scitbx/python_utils/tst_graph.py scitbx/python_utils/tst_random_transform.py scitbx/python_utils/tst_robust.py scitbx/random/ scitbx/random/tests/ scitbx/random/tests/tst_random.py scitbx/rigid_body/ scitbx/rigid_body/tst.py scitbx/rigid_body/essence/ scitbx/rigid_body/essence/tst_basic.py scitbx/rigid_body/essence/tst_energy_plots.py scitbx/rigid_body/essence/tst_tardy.py scitbx/rigid_body/proto/ scitbx/rigid_body/proto/tst_featherstone.py scitbx/rigid_body/proto/tst_free_motion.py scitbx/rigid_body/proto/tst_free_motion_hard.py scitbx/rigid_body/proto/tst_joint_lib.py scitbx/rigid_body/proto/tst_molecules.py scitbx/rigid_body/proto/tst_singular.py scitbx/rigid_body/proto/tst_spherical_refinement.py scitbx/serialization/ scitbx/serialization/tst_base_256.cpp scitbx/sparse/ scitbx/sparse/tests/ scitbx/sparse/tests/tst_lu_factorization.py scitbx/sparse/tests/tst_sparse.cpp scitbx/sparse/tests/tst_sparse.py scitbx/stl/ scitbx/stl/tst_map.py scitbx/stl/tst_set.py scitbx/stl/tst_vector.py scitbx/suffixtree/ scitbx/suffixtree/test/ scitbx/suffixtree/test/tst_single.py scitbx/tests/ scitbx/tests/tst_basic.csh scitbx/tests/tst_basic.py scitbx/tests/tst_cubicle_neighbors.py scitbx/tests/tst_genetic_algorithm_with_mp.py scitbx/tests/tst_minimizer_lbfgs_general.py scitbx/tests/tst_r3_utils.py scitbx/tests/tst_regular_grid_on_unit_sphere.py scitbx/tests/tst_smoothing.py scitbx/wigner/ scitbx/wigner/tst_wigner3j.py sent 1,122,945 bytes received 2,622 bytes 2,251,134.00 bytes/sec total size is 1,112,609 speedup is 0.99 building file list ... done sent 154 bytes received 12 bytes 332.00 bytes/sec total size is 0 speedup is 0.00 building file list ... done smtbx/ab_initio/ smtbx/ab_initio/tests/ smtbx/ab_initio/tests/tst_ab_initio_ext.py smtbx/ab_initio/tests/tst_charge_flipping.py smtbx/absolute_structure/ smtbx/absolute_structure/tests/ smtbx/absolute_structure/tests/tst_absolute_structure.py smtbx/masks/ smtbx/masks/tests/ smtbx/masks/tests/tst_masks.py smtbx/refinement/ smtbx/refinement/constraints/ smtbx/refinement/constraints/tests/ smtbx/refinement/constraints/tests/tst_constrained_structure.py smtbx/refinement/constraints/tests/tst_direction.py smtbx/refinement/constraints/tests/tst_disorder.py smtbx/refinement/constraints/tests/tst_geometrical_hydrogens.cpp smtbx/refinement/constraints/tests/tst_lbfgs.py smtbx/refinement/constraints/tests/tst_occupancies.py smtbx/refinement/constraints/tests/tst_reparametrisation.cpp smtbx/refinement/constraints/tests/tst_reparametrisation.py smtbx/refinement/constraints/tests/tst_rigid.py smtbx/refinement/constraints/tests/tst_same_group.py smtbx/refinement/constraints/tests/tst_special_position.cpp smtbx/refinement/restraints/ smtbx/refinement/restraints/tests/ smtbx/refinement/restraints/tests/tst_adp_restraints.py smtbx/refinement/restraints/tests/tst_manager.py smtbx/refinement/restraints/tests/tst_restraints.py smtbx/refinement/tests/ smtbx/refinement/tests/tst_least_squares.py smtbx/refinement/tests/tst_weighting_schemes.py smtbx/regression/ smtbx/regression/tst_commandline_anomrefine.py smtbx/regression/tst_commandline_refine.py smtbx/structure_factors/ smtbx/structure_factors/direct/ smtbx/structure_factors/direct/tests/ smtbx/structure_factors/direct/tests/tst_standard_xray.py smtbx/tests/ smtbx/tests/tst_utils.py sent 250,746 bytes received 519 bytes 502,530.00 bytes/sec total size is 248,243 speedup is 0.99 building file list ... done spotfinder/core_toolbox/ spotfinder/core_toolbox/boost_python/ spotfinder/core_toolbox/boost_python/tst_small_image.py sent 5,472 bytes received 37 bytes 11,018.00 bytes/sec total size is 5,074 speedup is 0.92 building file list ... done tbxx/ tbxx/tests/ tbxx/tests/tst_pretty_type_name.cpp sent 493 bytes received 41 bytes 1,068.00 bytes/sec total size is 323 speedup is 0.60 building file list ... done wxtbx/regression/ wxtbx/regression/tst_process_control.py sent 2,000 bytes received 34 bytes 4,068.00 bytes/sec total size is 1,770 speedup is 0.87 building file list ... done ./ annlib_adaptbx/ annlib_adaptbx/tests/ annlib_adaptbx/tests/data.txt annlib_adaptbx/tests/query.txt cctbx/maptbx/bcr/tables/ cctbx/maptbx/bcr/tables/Ag1+_wk1995.json.gz cctbx/maptbx/bcr/tables/Ag2+_wk1995.json.gz cctbx/maptbx/bcr/tables/Ag_electron.json.gz cctbx/maptbx/bcr/tables/Ag_wk1995.json.gz cctbx/maptbx/bcr/tables/Al3+_wk1995.json.gz cctbx/maptbx/bcr/tables/Al_electron.json.gz cctbx/maptbx/bcr/tables/Al_wk1995.json.gz cctbx/maptbx/bcr/tables/Au1+_wk1995.json.gz cctbx/maptbx/bcr/tables/Au3+_wk1995.json.gz cctbx/maptbx/bcr/tables/Au_electron.json.gz cctbx/maptbx/bcr/tables/Au_wk1995.json.gz cctbx/maptbx/bcr/tables/B_electron.json.gz cctbx/maptbx/bcr/tables/B_wk1995.json.gz cctbx/maptbx/bcr/tables/Ba2+_wk1995.json.gz cctbx/maptbx/bcr/tables/Ba_electron.json.gz cctbx/maptbx/bcr/tables/Ba_wk1995.json.gz cctbx/maptbx/bcr/tables/Br1-_wk1995.json.gz cctbx/maptbx/bcr/tables/Br_electron.json.gz cctbx/maptbx/bcr/tables/Br_wk1995.json.gz cctbx/maptbx/bcr/tables/C_electron.json.gz cctbx/maptbx/bcr/tables/C_wk1995.json.gz cctbx/maptbx/bcr/tables/Ca2+_wk1995.json.gz cctbx/maptbx/bcr/tables/Ca_electron.json.gz cctbx/maptbx/bcr/tables/Ca_wk1995.json.gz cctbx/maptbx/bcr/tables/Cd2+_wk1995.json.gz cctbx/maptbx/bcr/tables/Cd_electron.json.gz cctbx/maptbx/bcr/tables/Cd_wk1995.json.gz cctbx/maptbx/bcr/tables/Cl1-_wk1995.json.gz cctbx/maptbx/bcr/tables/Cl_electron.json.gz cctbx/maptbx/bcr/tables/Cl_wk1995.json.gz cctbx/maptbx/bcr/tables/Co2+_wk1995.json.gz cctbx/maptbx/bcr/tables/Co3+_wk1995.json.gz cctbx/maptbx/bcr/tables/Co_electron.json.gz cctbx/maptbx/bcr/tables/Co_wk1995.json.gz cctbx/maptbx/bcr/tables/Cr2+_wk1995.json.gz cctbx/maptbx/bcr/tables/Cr3+_wk1995.json.gz cctbx/maptbx/bcr/tables/Cr_electron.json.gz cctbx/maptbx/bcr/tables/Cr_wk1995.json.gz cctbx/maptbx/bcr/tables/Cu1+_wk1995.json.gz cctbx/maptbx/bcr/tables/Cu2+_wk1995.json.gz cctbx/maptbx/bcr/tables/Cu_electron.json.gz cctbx/maptbx/bcr/tables/Cu_wk1995.json.gz cctbx/maptbx/bcr/tables/D1-_wk1995.json.gz cctbx/maptbx/bcr/tables/D_wk1995.json.gz cctbx/maptbx/bcr/tables/F1-_wk1995.json.gz cctbx/maptbx/bcr/tables/F_electron.json.gz cctbx/maptbx/bcr/tables/F_wk1995.json.gz cctbx/maptbx/bcr/tables/Fe2+_wk1995.json.gz cctbx/maptbx/bcr/tables/Fe3+_wk1995.json.gz cctbx/maptbx/bcr/tables/Fe_electron.json.gz cctbx/maptbx/bcr/tables/Fe_wk1995.json.gz cctbx/maptbx/bcr/tables/H1-_wk1995.json.gz cctbx/maptbx/bcr/tables/H_electron.json.gz cctbx/maptbx/bcr/tables/H_wk1995.json.gz cctbx/maptbx/bcr/tables/Hg1+_wk1995.json.gz cctbx/maptbx/bcr/tables/Hg2+_wk1995.json.gz cctbx/maptbx/bcr/tables/Hg_electron.json.gz cctbx/maptbx/bcr/tables/Hg_wk1995.json.gz cctbx/maptbx/bcr/tables/I1-_wk1995.json.gz cctbx/maptbx/bcr/tables/I_electron.json.gz cctbx/maptbx/bcr/tables/I_wk1995.json.gz cctbx/maptbx/bcr/tables/K1+_wk1995.json.gz cctbx/maptbx/bcr/tables/K_electron.json.gz cctbx/maptbx/bcr/tables/K_wk1995.json.gz cctbx/maptbx/bcr/tables/Li1+_wk1995.json.gz cctbx/maptbx/bcr/tables/Li_electron.json.gz cctbx/maptbx/bcr/tables/Li_wk1995.json.gz cctbx/maptbx/bcr/tables/Mg2+_wk1995.json.gz cctbx/maptbx/bcr/tables/Mg_electron.json.gz cctbx/maptbx/bcr/tables/Mg_wk1995.json.gz cctbx/maptbx/bcr/tables/Mn2+_wk1995.json.gz cctbx/maptbx/bcr/tables/Mn3+_wk1995.json.gz cctbx/maptbx/bcr/tables/Mn4+_wk1995.json.gz cctbx/maptbx/bcr/tables/Mn_electron.json.gz cctbx/maptbx/bcr/tables/Mn_wk1995.json.gz cctbx/maptbx/bcr/tables/Mo3+_wk1995.json.gz cctbx/maptbx/bcr/tables/Mo5+_wk1995.json.gz cctbx/maptbx/bcr/tables/Mo6+_wk1995.json.gz cctbx/maptbx/bcr/tables/Mo_electron.json.gz cctbx/maptbx/bcr/tables/Mo_wk1995.json.gz cctbx/maptbx/bcr/tables/N_electron.json.gz cctbx/maptbx/bcr/tables/N_wk1995.json.gz cctbx/maptbx/bcr/tables/Na1+_wk1995.json.gz cctbx/maptbx/bcr/tables/Na_electron.json.gz cctbx/maptbx/bcr/tables/Na_wk1995.json.gz cctbx/maptbx/bcr/tables/Ni2+_wk1995.json.gz cctbx/maptbx/bcr/tables/Ni3+_wk1995.json.gz cctbx/maptbx/bcr/tables/Ni_electron.json.gz cctbx/maptbx/bcr/tables/Ni_wk1995.json.gz cctbx/maptbx/bcr/tables/O1-_wk1995.json.gz cctbx/maptbx/bcr/tables/O2-_wk1995.json.gz cctbx/maptbx/bcr/tables/O_electron.json.gz cctbx/maptbx/bcr/tables/O_wk1995.json.gz cctbx/maptbx/bcr/tables/P_electron.json.gz cctbx/maptbx/bcr/tables/P_wk1995.json.gz cctbx/maptbx/bcr/tables/Pt2+_wk1995.json.gz cctbx/maptbx/bcr/tables/Pt4+_wk1995.json.gz cctbx/maptbx/bcr/tables/Pt_electron.json.gz cctbx/maptbx/bcr/tables/Pt_wk1995.json.gz cctbx/maptbx/bcr/tables/S_electron.json.gz cctbx/maptbx/bcr/tables/S_wk1995.json.gz cctbx/maptbx/bcr/tables/Se_electron.json.gz 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fable/test/valid/write_extra_parentheses.f fable/test/valid/write_fmt_double.f fable/test/valid/write_format.f fable/test/valid/write_format_with_colon.f fable/test/valid/write_implied_do_1.f fable/test/valid/write_implied_do_2.f fable/test/valid/write_implied_do_3.f fable/test/valid/write_implied_do_4.f fable/test/valid/write_implied_do_5.f fable/test/valid/write_internal_file.f fable/test/valid/write_internal_file_2.f fable/test/valid/write_internal_file_3.f fable/test/valid/write_internal_file_4.f fable/test/valid/write_pow.f fable/test/valid/write_read_end_err_implied_do.f fable/test/valid/write_read_unformatted.f fable/test/valid/write_star.f fable/test/valid/write_star_real_star_4.f fable/test/valid/write_star_real_star_8.f iotbx/bioinformatics/test/alignment.pir iotbx/bioinformatics/test/ebi_blast.xml.gz iotbx/bioinformatics/test/ncbi_blast.xml.gz iotbx/ccp4_map/ccp4_20_21_22_to_30_40_50.ccp4 iotbx/examples/pdb_truncate_to_ala/__init__.py iotbx/examples/pdb_truncate_to_ala/crambin_pieces.pdb iotbx/examples/pdb_truncate_to_ala/resname_mix.pdb iotbx/examples/pdb_truncate_to_ala/tutorial.txt iotbx/examples/pdb_truncate_to_ala/v0_getting_started.py iotbx/examples/pdb_truncate_to_ala/v1_loop_over_atoms.py iotbx/examples/pdb_truncate_to_ala/v2_simple.py iotbx/examples/pdb_truncate_to_ala/v3_better.py iotbx/examples/pdb_truncate_to_ala/v4_with_bells_and_whistles.py iotbx/regression/data/ iotbx/regression/data/1yjp.pdb iotbx/regression/data/2ERL.pdb iotbx/regression/data/D7.ccp4 iotbx/regression/data/big_cube_model.cif iotbx/regression/data/big_cube_model.pdb iotbx/regression/data/cu3182Isup2.hkl iotbx/regression/data/cu3182sup1.cif iotbx/regression/data/insulin_unmerged_cutted_from_ccp4.mtz iotbx/regression/data/mmma.ccp4 iotbx/regression/data/mmmab.ccp4 iotbx/regression/data/mmmb.ccp4 iotbx/regression/data/non_zero_origin_map.ccp4 iotbx/regression/data/non_zero_origin_model.cif iotbx/regression/data/non_zero_origin_model.pdb iotbx/regression/data/non_zero_origin_model_split.cif iotbx/regression/data/non_zero_origin_model_split.pdb iotbx/regression/data/non_zero_origin_ncs_model.cif iotbx/regression/data/non_zero_origin_ncs_model.pdb iotbx/regression/data/non_zero_origin_ncs_spec.ncs_spec iotbx/regression/data/pdb1zff.ent iotbx/regression/data/phaser_1.mtz iotbx/regression/data/shelx.ins iotbx/xds/tests/INTEGRATE.HKL iotbx/xds/tests/NEW_XPARM.XDS iotbx/xds/tests/XDS.INP iotbx/xds/tests/XDS_2.INP iotbx/xds/tests/XPARM.XDS libtbx/citations.params mmtbx/regression/pdbs/ mmtbx/regression/pdbs/1ucs_cutted_xyz_rounded.pdb mmtbx/regression/pdbs/1yjp_h.pdb mmtbx/regression/pdbs/7n2l.pdb mmtbx/regression/pdbs/AF_json_v3.cif mmtbx/regression/pdbs/AF_json_v3.pdb mmtbx/regression/pdbs/Fe_1brf_snip_reduced.pdb mmtbx/regression/pdbs/fibronectin_af_ca_1358_1537.cif mmtbx/regression/pdbs/fibronectin_af_ca_1358_1537.pdb mmtbx/regression/pdbs/ligand_before_prot.pdb mmtbx/regression/pdbs/one_chain_ligand_water.pdb mmtbx/regression/pdbs/p9.pdb mmtbx/regression/pdbs/pae.pdb mmtbx/regression/pdbs/pae_model.cif mmtbx/regression/pdbs/pae_model.pdb mmtbx/regression/pdbs/test1.cif mmtbx/regression/pdbs/two_chains.pdb mmtbx/regression/pdbs/two_chains_ligand_water.pdb rstbx/indexing/results2.dat rstbx/indexing/si_brief.dat rstbx/indexing/si_synthetic.dat scitbx/array_family/boost_python/regression_test.py scitbx/tests/__init__.py scitbx/tests/differential_evolution.py scitbx/tests/direct_search_simulated_annealing.py scitbx/tests/golden_section_search.py scitbx/tests/simplex.py smtbx/regression/test_data/ smtbx/regression/test_data/sucrose_p1.res smtbx/regression/test_data/thpp.cif smtbx/regression/test_data/thpp.hkl smtbx/regression/test_data/thpp.ins sent 84,873,013 bytes received 11,276 bytes 56,589,526.00 bytes/sec total size is 84,750,513 speedup is 1.00 make[1]: Leaving directory '/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1' rm -f debian/libcctbx-dev.debhelper.log debian/libcctbx0.debhelper.log debian/python3-cctbx.debhelper.log debian/rules override_dh_install make[1]: Entering directory '/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1' dh_install -p libcctbx0 usr/lib/x86_64-linux-gnu/lib*.so.* install -m0755 -d debian/libcctbx0//usr/lib/x86_64-linux-gnu cp --reflink=auto -a debian/tmp/usr/lib/x86_64-linux-gnu/libann_adaptor.so.0 debian/tmp/usr/lib/x86_64-linux-gnu/libann_adaptor.so.0.0.1 debian/tmp/usr/lib/x86_64-linux-gnu/libasymmetric_map.so.0 debian/tmp/usr/lib/x86_64-linux-gnu/libasymmetric_map.so.0.0.1 debian/tmp/usr/lib/x86_64-linux-gnu/libcbf-private.so.0 debian/tmp/usr/lib/x86_64-linux-gnu/libcbf-private.so.0.0.1 debian/tmp/usr/lib/x86_64-linux-gnu/libccp4io.so.0 debian/tmp/usr/lib/x86_64-linux-gnu/libccp4io.so.0.0.1 debian/tmp/usr/lib/x86_64-linux-gnu/libcctbx.so.0 debian/tmp/usr/lib/x86_64-linux-gnu/libcctbx.so.0.0.1 debian/tmp/usr/lib/x86_64-linux-gnu/libcctbx_sgtbx_asu.so.0 debian/tmp/usr/lib/x86_64-linux-gnu/libcctbx_sgtbx_asu.so.0.0.1 debian/tmp/usr/lib/x86_64-linux-gnu/libdxtbxspotfinder.so.0 debian/tmp/usr/lib/x86_64-linux-gnu/libdxtbxspotfinder.so.0.0.1 debian/tmp/usr/lib/x86_64-linux-gnu/libiotbx_mtz.so.0 debian/tmp/usr/lib/x86_64-linux-gnu/libiotbx_mtz.so.0.0.1 debian/tmp/usr/lib/x86_64-linux-gnu/libiotbx_pdb.so.0 debian/tmp/usr/lib/x86_64-linux-gnu/libiotbx_pdb.so.0.0.1 debian/tmp/usr/lib/x86_64-linux-gnu/libiotbx_xplor.so.0 debian/tmp/usr/lib/x86_64-linux-gnu/libiotbx_xplor.so.0.0.1 debian/tmp/usr/lib/x86_64-linux-gnu/libmmtbx_masks.so.0 debian/tmp/usr/lib/x86_64-linux-gnu/libmmtbx_masks.so.0.0.1 debian/tmp/usr/lib/x86_64-linux-gnu/libmmtbx_tls.so.0 debian/tmp/usr/lib/x86_64-linux-gnu/libmmtbx_tls.so.0.0.1 debian/tmp/usr/lib/x86_64-linux-gnu/libomptbx.so.0 debian/tmp/usr/lib/x86_64-linux-gnu/libomptbx.so.0.0.1 debian/tmp/usr/lib/x86_64-linux-gnu/librstbx.so.0 debian/tmp/usr/lib/x86_64-linux-gnu/librstbx.so.0.0.1 debian/tmp/usr/lib/x86_64-linux-gnu/libscitbx_boost_python.so.0 debian/tmp/usr/lib/x86_64-linux-gnu/libscitbx_boost_python.so.0.0.1 debian/tmp/usr/lib/x86_64-linux-gnu/libscitbx_minpack.so.0 debian/tmp/usr/lib/x86_64-linux-gnu/libscitbx_minpack.so.0.0.1 debian/tmp/usr/lib/x86_64-linux-gnu/libscitbx_slatec.so.0 debian/tmp/usr/lib/x86_64-linux-gnu/libscitbx_slatec.so.0.0.1 debian/tmp/usr/lib/x86_64-linux-gnu/libsmtbx_refinement_constraints.so.0 debian/tmp/usr/lib/x86_64-linux-gnu/libsmtbx_refinement_constraints.so.0.0.1 debian/tmp/usr/lib/x86_64-linux-gnu/libspotfinder.so.0 debian/tmp/usr/lib/x86_64-linux-gnu/libspotfinder.so.0.0.1 debian/libcctbx0//usr/lib/x86_64-linux-gnu/ dh_install -p libcctbx-dev usr/include/ install -m0755 -d debian/libcctbx-dev//usr cp --reflink=auto -a debian/tmp/usr/include/ debian/libcctbx-dev//usr/ dh_install -p libcctbx-dev usr/lib/x86_64-linux-gnu/lib*.so install -m0755 -d debian/libcctbx-dev//usr/lib/x86_64-linux-gnu cp --reflink=auto -a debian/tmp/usr/lib/x86_64-linux-gnu/libann_adaptor.so debian/tmp/usr/lib/x86_64-linux-gnu/libasymmetric_map.so debian/tmp/usr/lib/x86_64-linux-gnu/libcbf-private.so debian/tmp/usr/lib/x86_64-linux-gnu/libccp4io.so debian/tmp/usr/lib/x86_64-linux-gnu/libcctbx.so debian/tmp/usr/lib/x86_64-linux-gnu/libcctbx_sgtbx_asu.so debian/tmp/usr/lib/x86_64-linux-gnu/libdxtbxspotfinder.so debian/tmp/usr/lib/x86_64-linux-gnu/libiotbx_mtz.so debian/tmp/usr/lib/x86_64-linux-gnu/libiotbx_pdb.so debian/tmp/usr/lib/x86_64-linux-gnu/libiotbx_xplor.so debian/tmp/usr/lib/x86_64-linux-gnu/libmmtbx_masks.so debian/tmp/usr/lib/x86_64-linux-gnu/libmmtbx_tls.so debian/tmp/usr/lib/x86_64-linux-gnu/libomptbx.so debian/tmp/usr/lib/x86_64-linux-gnu/librstbx.so debian/tmp/usr/lib/x86_64-linux-gnu/libscitbx_boost_python.so debian/tmp/usr/lib/x86_64-linux-gnu/libscitbx_minpack.so debian/tmp/usr/lib/x86_64-linux-gnu/libscitbx_slatec.so debian/tmp/usr/lib/x86_64-linux-gnu/libsmtbx_refinement_constraints.so debian/tmp/usr/lib/x86_64-linux-gnu/libspotfinder.so debian/libcctbx-dev//usr/lib/x86_64-linux-gnu/ dh_install -p python3-cctbx usr/bin install -m0755 -d debian/python3-cctbx//usr cp --reflink=auto -a debian/tmp/usr/bin debian/python3-cctbx//usr/ install -m0755 -d debian/python3-cctbx//usr/lib/python3/dist-packages/cctbx/maptbx/bcr/ cp --reflink=auto -a ./cctbx/maptbx/bcr/CNOPSFeAu-6_1A_dist21.tab debian/python3-cctbx//usr/lib/python3/dist-packages/cctbx/maptbx/bcr// dh_install -p python3-cctbx usr/lib/cctbx install -m0755 -d debian/python3-cctbx//usr/lib cp --reflink=auto -a debian/tmp/usr/lib/cctbx debian/python3-cctbx//usr/lib/ install -m0755 -d debian/python3-cctbx//usr/lib/python3/dist-packages/cctbx/maptbx/bcr/ cp --reflink=auto -a ./cctbx/maptbx/bcr/CNOPSFeAu-6_1A_dist21.tab debian/python3-cctbx//usr/lib/python3/dist-packages/cctbx/maptbx/bcr// dh_install -p python3-cctbx usr/lib/python* install -m0755 -d debian/python3-cctbx//usr/lib cp --reflink=auto -a debian/tmp/usr/lib/python3.13 debian/tmp/usr/lib/python3.14 debian/python3-cctbx//usr/lib/ install -m0755 -d debian/python3-cctbx//usr/lib/python3/dist-packages/cctbx/maptbx/bcr/ cp --reflink=auto -a ./cctbx/maptbx/bcr/CNOPSFeAu-6_1A_dist21.tab debian/python3-cctbx//usr/lib/python3/dist-packages/cctbx/maptbx/bcr// rm debian/python3-cctbx/usr/lib/python3*/dist-packages/boost/__init__.py make[1]: Leaving directory '/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1' dh_installdocs -a -O--buildsystem=pybuild install -m0755 -d debian/libcctbx0/usr/share/doc/libcctbx0 install -p -m0644 debian/copyright debian/libcctbx0/usr/share/doc/libcctbx0/copyright install -m0755 -d debian/libcctbx-dev/usr/share/doc/libcctbx-dev install -p -m0644 debian/copyright debian/libcctbx-dev/usr/share/doc/libcctbx-dev/copyright install -m0755 -d debian/python3-cctbx/usr/share/doc/python3-cctbx install -p -m0644 debian/copyright debian/python3-cctbx/usr/share/doc/python3-cctbx/copyright dh_installchangelogs -a -O--buildsystem=pybuild install -m0755 -d debian/libcctbx-dev/usr/share/doc/libcctbx-dev install -p -m0644 debian/.debhelper/generated/libcctbx-dev/dh_installchangelogs.dch.trimmed debian/libcctbx-dev/usr/share/doc/libcctbx-dev/changelog.Debian install -p -m0644 ./CHANGELOG.rst debian/libcctbx-dev/usr/share/doc/libcctbx-dev/changelog install -m0755 -d debian/libcctbx0/usr/share/doc/libcctbx0 install -p -m0644 debian/.debhelper/generated/libcctbx0/dh_installchangelogs.dch.trimmed debian/libcctbx0/usr/share/doc/libcctbx0/changelog.Debian install -p -m0644 ./CHANGELOG.rst debian/libcctbx0/usr/share/doc/libcctbx0/changelog install -m0755 -d debian/python3-cctbx/usr/share/doc/python3-cctbx install -p -m0644 debian/.debhelper/generated/python3-cctbx/dh_installchangelogs.dch.trimmed debian/python3-cctbx/usr/share/doc/python3-cctbx/changelog.Debian install -p -m0644 ./CHANGELOG.rst debian/python3-cctbx/usr/share/doc/python3-cctbx/changelog dh_python3 -a -O--buildsystem=pybuild D: dh_python3 dh_python3:87: version: 7.20260309 D: dh_python3 dh_python3:88: argv: ['/usr/bin/dh_python3', '-a', '-O--buildsystem=pybuild'] D: dh_python3 dh_python3:89: options: DHPythonOptions(O=['--buildsystem=pybuild'], accept_upstream_versions=False, arch=True, clean_dbg_pkg=True, compile_all=False, depends=[], depends_section=[], guess_deps=True, ignore_shebangs=False, no_ext_rename=False, no_package=[], no_shebang_rewrite=False, package=[], private_dir=None, recommends=[], recommends_section=[], regexpr=[], remaining_packages=False, requires=[], shebang=None, skip_private=False, suggests=[], suggests_section=[], verbose=True, vrange=None, write_log=False) D: dh_python3 dh_python3:90: supported Python versions: 3.13,3.14 (default=3.13) D: dh_python3 debhelper:213: skipping package libcctbx0 (missing ${python3:Depends} in Depends/Recommends) D: dh_python3 debhelper:213: skipping package libcctbx-dev (missing ${python3:Depends} in Depends/Recommends) D: dh_python3 debhelper:223: source=cctbx, binary packages=['python3-cctbx'] D: dh_python3 dh_python3:117: processing package python3-cctbx... D: dh_python3 fs:60: moving files from debian/python3-cctbx/usr/lib/python3.13/dist-packages to debian/python3-cctbx/usr/lib/python3/dist-packages/ D: dh_python3 tools:296: invoking: /usr/bin/python3.13 -c 'import sysconfig as s; print("__SEP__".join(i or "" for i in s.get_config_vars("SOABI", "MULTIARCH", "INCLUDEPY", "LIBPL", "LDLIBRARY")))' I: dh_python3 fs:524: renaming cctbx_adptbx_ext.so to cctbx_adptbx_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming iotbx_pdb_ext.so to iotbx_pdb_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming boost_adaptbx_boost_thread_test_ext.so to boost_adaptbx_boost_thread_test_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming spotfinder_hough_ext.so to spotfinder_hough_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming scitbx_lbfgsb_ext.so to scitbx_lbfgsb_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming boost_adaptbx_graph_maximum_clique_ext.so to boost_adaptbx_graph_maximum_clique_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming boost_adaptbx_graph_clustering_algorithm_ext.so to boost_adaptbx_graph_clustering_algorithm_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming iotbx_scalepack_ext.so to iotbx_scalepack_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming mmtbx_reference_coordinate_ext.so to mmtbx_reference_coordinate_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_maptbx_bcr_bcr_ext.so to cctbx_maptbx_bcr_bcr_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_eltbx_henke_ext.so to cctbx_eltbx_henke_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming scitbx_sparse_ext.so to scitbx_sparse_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming mmtbx_dynamics_ext.so to mmtbx_dynamics_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming iotbx_shelx_ext.so to iotbx_shelx_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_emma_ext.so to cctbx_emma_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming iotbx_wildcard_ext.so to iotbx_wildcard_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming boost_optional_ext.so to boost_optional_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming smtbx_structure_factors_direct_ext.so to smtbx_structure_factors_direct_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_eltbx_icsd_radii_ext.so to cctbx_eltbx_icsd_radii_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming boost_adaptbx_graph_ext.so to boost_adaptbx_graph_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming mmtbx_ramachandran_restraints_ext.so to mmtbx_ramachandran_restraints_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_xray_observations_ext.so to cctbx_xray_observations_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_eltbx_attenuation_coefficient_ext.so to cctbx_eltbx_attenuation_coefficient_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming scitbx_rigid_body_ext.so to scitbx_rigid_body_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_eltbx_chemical_elements_ext.so to cctbx_eltbx_chemical_elements_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming boost_adaptbx_graph_min_cut_max_flow_ext.so to boost_adaptbx_graph_min_cut_max_flow_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_anharmonic_ext.so to cctbx_anharmonic_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming rstbx_symmetry_constraints_ext.so to rstbx_symmetry_constraints_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming rstbx_ext.so to rstbx_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_eltbx_wavelengths_ext.so to cctbx_eltbx_wavelengths_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming scitbx_minpack_ext.so to scitbx_minpack_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming boost_adaptbx_python_streambuf_test_ext.so to boost_adaptbx_python_streambuf_test_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming iotbx_ccp4_map_ext.so to iotbx_ccp4_map_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming smtbx_refinement_restraints_ext.so to smtbx_refinement_restraints_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming scitbx_graphics_utils_ext.so to scitbx_graphics_utils_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_xray_ext.so to cctbx_xray_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_statistics_ext.so to cctbx_statistics_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming mmtbx_validation_ramachandran_ext.so to mmtbx_validation_ramachandran_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming mmtbx_reduce_ext.so to mmtbx_reduce_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming iotbx_xplor_ext.so to iotbx_xplor_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_miller_ext.so to cctbx_miller_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_eltbx_covalent_radii_ext.so to cctbx_eltbx_covalent_radii_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming mmtbx_bulk_solvent_ext.so to mmtbx_bulk_solvent_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming scitbx_glmtbx_ext.so to scitbx_glmtbx_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming scitbx_r3_utils_ext.so to scitbx_r3_utils_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming spotfinder_distltbx_ext.so to spotfinder_distltbx_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming mmtbx_mosaic_ext.so to mmtbx_mosaic_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming scitbx_iso_surface_ext.so to scitbx_iso_surface_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming gltbx_util_ext.so to gltbx_util_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming mmtbx_rsr_ext.so to mmtbx_rsr_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming mmtbx_den_restraints_ext.so to mmtbx_den_restraints_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming mmtbx_secondary_structure_ext.so to mmtbx_secondary_structure_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming mmtbx_tls_optimise_amplitudes_ext.so to mmtbx_tls_optimise_amplitudes_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming mmtbx_utils_ext.so to mmtbx_utils_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_merging_ext.so to cctbx_merging_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming scitbx_lbfgs_ext.so to scitbx_lbfgs_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_masks_ext.so to cctbx_masks_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming smtbx_stl_map_ext.so to smtbx_stl_map_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming rstbx_integration_ext.so to rstbx_integration_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming mmtbx_scaling_ext.so to mmtbx_scaling_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming mmtbx_max_lik_ext.so to mmtbx_max_lik_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming rstbx_bandpass_ext.so to rstbx_bandpass_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming boost_adaptbx_graph_metric_ext.so to boost_adaptbx_graph_metric_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming iotbx_cif_ext.so to iotbx_cif_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming mmtbx_f_model_ext.so to mmtbx_f_model_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming rstbx_bpcx_detector_model_ext.so to rstbx_bpcx_detector_model_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming dxtbx_flumpy.so to dxtbx_flumpy.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming scitbx_lstbx_normal_equations_ext.so to scitbx_lstbx_normal_equations_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming boost_python_meta_ext.so to boost_python_meta_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming scitbx_stl_set_ext.so to scitbx_stl_set_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming rstbx_simulation_ext.so to rstbx_simulation_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming scitbx_random_ext.so to scitbx_random_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming regression_test_ext.so to regression_test_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming dxtbx_imageset_ext.so to dxtbx_imageset_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming smtbx_refinement_least_squares_ext.so to smtbx_refinement_least_squares_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_eltbx_tiny_pse_ext.so to cctbx_eltbx_tiny_pse_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming std_pair_ext.so to std_pair_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming mmtbx_tls_decompose_ext.so to mmtbx_tls_decompose_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming gltbx_viewer_utils_ext.so to gltbx_viewer_utils_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming mmtbx_geometry_shared_types_ext.so to mmtbx_geometry_shared_types_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming fable_ext.so to fable_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_math_ext.so to cctbx_math_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming gltbx_gl_ext.so to gltbx_gl_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming dxtbx_ext.so to dxtbx_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming mmtbx_probe_ext.so to mmtbx_probe_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming mmtbx_masks_ext.so to mmtbx_masks_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_eltbx_sasaki_ext.so to cctbx_eltbx_sasaki_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_eltbx_neutron_ext.so to cctbx_eltbx_neutron_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming mmtbx_geometry_sphere_surface_sampling_ext.so to mmtbx_geometry_sphere_surface_sampling_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming iotbx_dsn6_map_ext.so to iotbx_dsn6_map_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming scitbx_array_family_shared_ext.so to scitbx_array_family_shared_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming spotfinder_array_family_flex_ext.so to spotfinder_array_family_flex_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming boost_tuple_ext.so to boost_tuple_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming rstbx_diffraction_fastbragg_ext.so to rstbx_diffraction_fastbragg_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_eltbx_fp_fdp_ext.so to cctbx_eltbx_fp_fdp_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming rstbx_simage_ext.so to rstbx_simage_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming iotbx_pdb_hierarchy_ext.so to iotbx_pdb_hierarchy_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming determine_unit_cell_ext.so to determine_unit_cell_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming dxtbx_format_nexus_ext.so to dxtbx_format_nexus_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cma_es_ext.so to cma_es_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming mmtbx_tls_utils_ext.so to mmtbx_tls_utils_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_asymmetric_map_ext.so to cctbx_asymmetric_map_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming iotbx_detectors_ext.so to iotbx_detectors_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_uctbx_ext.so to cctbx_uctbx_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming iotbx_detectors_bruker_ext.so to iotbx_detectors_bruker_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_french_wilson_ext.so to cctbx_french_wilson_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming gltbx_quadrics_ext.so to gltbx_quadrics_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming smtbx_ab_initio_ext.so to smtbx_ab_initio_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming dxtbx_model_ext.so to dxtbx_model_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_maptbx_ext.so to cctbx_maptbx_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_crystal_ext.so to cctbx_crystal_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming annlib_ext.so to annlib_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming boost_python_hybrid_times_ext.so to boost_python_hybrid_times_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming mmtbx_building_loop_closure_ext.so to mmtbx_building_loop_closure_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming boost_adaptbx_graph_graph_structure_comparison_ext.so to boost_adaptbx_graph_graph_structure_comparison_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming scitbx_fftpack_ext.so to scitbx_fftpack_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_geometry_restraints_ext.so to cctbx_geometry_restraints_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_sgtbx_ext.so to cctbx_sgtbx_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming mmtbx_geometry_clash_ext.so to mmtbx_geometry_clash_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming iotbx_mtz_ext.so to iotbx_mtz_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming scitbx_stl_map_ext.so to scitbx_stl_map_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming omptbx_ext.so to omptbx_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming scitbx_suffixtree_single_ext.so to scitbx_suffixtree_single_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming smtbx_array_family_ext.so to smtbx_array_family_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_orientation_ext.so to cctbx_orientation_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming spotfinder_dxtbx_ext.so to spotfinder_dxtbx_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming mmtbx_ncs_cartesian_restraints_ext.so to mmtbx_ncs_cartesian_restraints_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming ccp4io_adaptbx_ext.so to ccp4io_adaptbx_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_sgtbx_asu_ext.so to cctbx_sgtbx_asu_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming mmtbx_ncs_ext.so to mmtbx_ncs_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming mmtbx_pair_interaction_ext.so to mmtbx_pair_interaction_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming scitbx_suffixtree_shared_ext.so to scitbx_suffixtree_shared_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming scitbx_stl_vector_ext.so to scitbx_stl_vector_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming boost_rational_ext.so to boost_rational_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming rstbx_array_family_flex_ext.so to rstbx_array_family_flex_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming boost_adaptbx_graph_connected_component_algorithm_ext.so to boost_adaptbx_graph_connected_component_algorithm_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_dmtbx_ext.so to cctbx_dmtbx_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming mmtbx_hydrogens_ext.so to mmtbx_hydrogens_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_multipolar_ext.so to cctbx_multipolar_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming smtbx_refinement_constraints_ext.so to smtbx_refinement_constraints_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming mmtbx_dssp_ext.so to mmtbx_dssp_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming iotbx_dtrek_ext.so to iotbx_dtrek_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_array_family_flex_ext.so to cctbx_array_family_flex_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming rstbx_indexing_api_ext.so to rstbx_indexing_api_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming dxtbx_format_image_ext.so to dxtbx_format_image_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming boost_adaptbx_graph_breadth_first_search_ext.so to boost_adaptbx_graph_breadth_first_search_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming scitbx_array_family_flex_ext.so to scitbx_array_family_flex_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming scitbx_cubicle_neighbors_ext.so to scitbx_cubicle_neighbors_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming mmtbx_geometry_asa_ext.so to mmtbx_geometry_asa_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_eltbx_xray_scattering_ext.so to cctbx_eltbx_xray_scattering_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_geometry_ext.so to cctbx_geometry_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming mmtbx_geometry_indexing_ext.so to mmtbx_geometry_indexing_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming boost_adaptbx_graph_utility_ext.so to boost_adaptbx_graph_utility_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_translation_search_ext.so to cctbx_translation_search_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming dxtbx_masking_ext.so to dxtbx_masking_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming mmtbx_alignment_ext.so to mmtbx_alignment_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming mmtbx_geometry_primitive_ext.so to mmtbx_geometry_primitive_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_adp_restraints_ext.so to cctbx_adp_restraints_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming scitbx_math_ext.so to scitbx_math_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming gltbx_fonts_ext.so to gltbx_fonts_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming mmtbx_rotamer_fit_ext.so to mmtbx_rotamer_fit_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming scitbx_wigner_ext.so to scitbx_wigner_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming mmtbx_tls_ext.so to mmtbx_tls_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming scitbx_linalg_ext.so to scitbx_linalg_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cbflib_ext.so to cbflib_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_symmetry_search_ext.so to cctbx_symmetry_search_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming gltbx_glu_ext.so to gltbx_glu_ext.cpython-313-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_covariance_ext.so to cctbx_covariance_ext.cpython-313-x86_64-linux-gnu.so D: dh_python3 fs:60: moving files from debian/python3-cctbx/usr/lib/python3.14/dist-packages to debian/python3-cctbx/usr/lib/python3/dist-packages/ D: dh_python3 tools:296: invoking: /usr/bin/python3.14 -c 'import sysconfig as s; print("__SEP__".join(i or "" for i in s.get_config_vars("SOABI", "MULTIARCH", "INCLUDEPY", "LIBPL", "LDLIBRARY")))' I: dh_python3 fs:524: renaming cctbx_adptbx_ext.so to cctbx_adptbx_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming iotbx_pdb_ext.so to iotbx_pdb_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming boost_adaptbx_boost_thread_test_ext.so to boost_adaptbx_boost_thread_test_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming spotfinder_hough_ext.so to spotfinder_hough_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming scitbx_lbfgsb_ext.so to scitbx_lbfgsb_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming boost_adaptbx_graph_maximum_clique_ext.so to boost_adaptbx_graph_maximum_clique_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming boost_adaptbx_graph_clustering_algorithm_ext.so to boost_adaptbx_graph_clustering_algorithm_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming iotbx_scalepack_ext.so to iotbx_scalepack_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming mmtbx_reference_coordinate_ext.so to mmtbx_reference_coordinate_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_maptbx_bcr_bcr_ext.so to cctbx_maptbx_bcr_bcr_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_eltbx_henke_ext.so to cctbx_eltbx_henke_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming scitbx_sparse_ext.so to scitbx_sparse_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming mmtbx_dynamics_ext.so to mmtbx_dynamics_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming iotbx_shelx_ext.so to iotbx_shelx_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_emma_ext.so to cctbx_emma_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming iotbx_wildcard_ext.so to iotbx_wildcard_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming boost_optional_ext.so to boost_optional_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming smtbx_structure_factors_direct_ext.so to smtbx_structure_factors_direct_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_eltbx_icsd_radii_ext.so to cctbx_eltbx_icsd_radii_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming boost_adaptbx_graph_ext.so to boost_adaptbx_graph_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming mmtbx_ramachandran_restraints_ext.so to mmtbx_ramachandran_restraints_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_xray_observations_ext.so to cctbx_xray_observations_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_eltbx_attenuation_coefficient_ext.so to cctbx_eltbx_attenuation_coefficient_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming scitbx_rigid_body_ext.so to scitbx_rigid_body_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_eltbx_chemical_elements_ext.so to cctbx_eltbx_chemical_elements_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming boost_adaptbx_graph_min_cut_max_flow_ext.so to boost_adaptbx_graph_min_cut_max_flow_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_anharmonic_ext.so to cctbx_anharmonic_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming rstbx_symmetry_constraints_ext.so to rstbx_symmetry_constraints_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming rstbx_ext.so to rstbx_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_eltbx_wavelengths_ext.so to cctbx_eltbx_wavelengths_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming scitbx_minpack_ext.so to scitbx_minpack_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming boost_adaptbx_python_streambuf_test_ext.so to boost_adaptbx_python_streambuf_test_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming iotbx_ccp4_map_ext.so to iotbx_ccp4_map_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming smtbx_refinement_restraints_ext.so to smtbx_refinement_restraints_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming scitbx_graphics_utils_ext.so to scitbx_graphics_utils_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_xray_ext.so to cctbx_xray_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_statistics_ext.so to cctbx_statistics_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming mmtbx_validation_ramachandran_ext.so to mmtbx_validation_ramachandran_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming mmtbx_reduce_ext.so to mmtbx_reduce_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming iotbx_xplor_ext.so to iotbx_xplor_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_miller_ext.so to cctbx_miller_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_eltbx_covalent_radii_ext.so to cctbx_eltbx_covalent_radii_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming mmtbx_bulk_solvent_ext.so to mmtbx_bulk_solvent_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming scitbx_glmtbx_ext.so to scitbx_glmtbx_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming scitbx_r3_utils_ext.so to scitbx_r3_utils_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming spotfinder_distltbx_ext.so to spotfinder_distltbx_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming mmtbx_mosaic_ext.so to mmtbx_mosaic_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming scitbx_iso_surface_ext.so to scitbx_iso_surface_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming gltbx_util_ext.so to gltbx_util_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming mmtbx_rsr_ext.so to mmtbx_rsr_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming mmtbx_den_restraints_ext.so to mmtbx_den_restraints_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming mmtbx_secondary_structure_ext.so to mmtbx_secondary_structure_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming mmtbx_tls_optimise_amplitudes_ext.so to mmtbx_tls_optimise_amplitudes_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming mmtbx_utils_ext.so to mmtbx_utils_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_merging_ext.so to cctbx_merging_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming scitbx_lbfgs_ext.so to scitbx_lbfgs_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_masks_ext.so to cctbx_masks_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming smtbx_stl_map_ext.so to smtbx_stl_map_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming rstbx_integration_ext.so to rstbx_integration_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming mmtbx_scaling_ext.so to mmtbx_scaling_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming mmtbx_max_lik_ext.so to mmtbx_max_lik_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming rstbx_bandpass_ext.so to rstbx_bandpass_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming boost_adaptbx_graph_metric_ext.so to boost_adaptbx_graph_metric_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming iotbx_cif_ext.so to iotbx_cif_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming mmtbx_f_model_ext.so to mmtbx_f_model_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming rstbx_bpcx_detector_model_ext.so to rstbx_bpcx_detector_model_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming dxtbx_flumpy.so to dxtbx_flumpy.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming scitbx_lstbx_normal_equations_ext.so to scitbx_lstbx_normal_equations_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming boost_python_meta_ext.so to boost_python_meta_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming scitbx_stl_set_ext.so to scitbx_stl_set_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming rstbx_simulation_ext.so to rstbx_simulation_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming scitbx_random_ext.so to scitbx_random_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming regression_test_ext.so to regression_test_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming dxtbx_imageset_ext.so to dxtbx_imageset_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming smtbx_refinement_least_squares_ext.so to smtbx_refinement_least_squares_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_eltbx_tiny_pse_ext.so to cctbx_eltbx_tiny_pse_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming std_pair_ext.so to std_pair_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming mmtbx_tls_decompose_ext.so to mmtbx_tls_decompose_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming gltbx_viewer_utils_ext.so to gltbx_viewer_utils_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming mmtbx_geometry_shared_types_ext.so to mmtbx_geometry_shared_types_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming fable_ext.so to fable_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_math_ext.so to cctbx_math_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming gltbx_gl_ext.so to gltbx_gl_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming dxtbx_ext.so to dxtbx_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming mmtbx_probe_ext.so to mmtbx_probe_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming mmtbx_masks_ext.so to mmtbx_masks_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_eltbx_sasaki_ext.so to cctbx_eltbx_sasaki_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_eltbx_neutron_ext.so to cctbx_eltbx_neutron_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming mmtbx_geometry_sphere_surface_sampling_ext.so to mmtbx_geometry_sphere_surface_sampling_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming iotbx_dsn6_map_ext.so to iotbx_dsn6_map_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming scitbx_array_family_shared_ext.so to scitbx_array_family_shared_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming spotfinder_array_family_flex_ext.so to spotfinder_array_family_flex_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming boost_tuple_ext.so to boost_tuple_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming rstbx_diffraction_fastbragg_ext.so to rstbx_diffraction_fastbragg_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_eltbx_fp_fdp_ext.so to cctbx_eltbx_fp_fdp_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming rstbx_simage_ext.so to rstbx_simage_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming iotbx_pdb_hierarchy_ext.so to iotbx_pdb_hierarchy_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming determine_unit_cell_ext.so to determine_unit_cell_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming dxtbx_format_nexus_ext.so to dxtbx_format_nexus_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cma_es_ext.so to cma_es_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming mmtbx_tls_utils_ext.so to mmtbx_tls_utils_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_asymmetric_map_ext.so to cctbx_asymmetric_map_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming iotbx_detectors_ext.so to iotbx_detectors_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_uctbx_ext.so to cctbx_uctbx_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming iotbx_detectors_bruker_ext.so to iotbx_detectors_bruker_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_french_wilson_ext.so to cctbx_french_wilson_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming gltbx_quadrics_ext.so to gltbx_quadrics_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming smtbx_ab_initio_ext.so to smtbx_ab_initio_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming dxtbx_model_ext.so to dxtbx_model_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_maptbx_ext.so to cctbx_maptbx_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_crystal_ext.so to cctbx_crystal_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming annlib_ext.so to annlib_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming boost_python_hybrid_times_ext.so to boost_python_hybrid_times_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming mmtbx_building_loop_closure_ext.so to mmtbx_building_loop_closure_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming boost_adaptbx_graph_graph_structure_comparison_ext.so to boost_adaptbx_graph_graph_structure_comparison_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming scitbx_fftpack_ext.so to scitbx_fftpack_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_geometry_restraints_ext.so to cctbx_geometry_restraints_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_sgtbx_ext.so to cctbx_sgtbx_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming mmtbx_geometry_clash_ext.so to mmtbx_geometry_clash_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming iotbx_mtz_ext.so to iotbx_mtz_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming scitbx_stl_map_ext.so to scitbx_stl_map_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming omptbx_ext.so to omptbx_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming scitbx_suffixtree_single_ext.so to scitbx_suffixtree_single_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming smtbx_array_family_ext.so to smtbx_array_family_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_orientation_ext.so to cctbx_orientation_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming spotfinder_dxtbx_ext.so to spotfinder_dxtbx_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming mmtbx_ncs_cartesian_restraints_ext.so to mmtbx_ncs_cartesian_restraints_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming ccp4io_adaptbx_ext.so to ccp4io_adaptbx_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_sgtbx_asu_ext.so to cctbx_sgtbx_asu_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming mmtbx_ncs_ext.so to mmtbx_ncs_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming mmtbx_pair_interaction_ext.so to mmtbx_pair_interaction_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming scitbx_suffixtree_shared_ext.so to scitbx_suffixtree_shared_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming scitbx_stl_vector_ext.so to scitbx_stl_vector_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming boost_rational_ext.so to boost_rational_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming rstbx_array_family_flex_ext.so to rstbx_array_family_flex_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming boost_adaptbx_graph_connected_component_algorithm_ext.so to boost_adaptbx_graph_connected_component_algorithm_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_dmtbx_ext.so to cctbx_dmtbx_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming mmtbx_hydrogens_ext.so to mmtbx_hydrogens_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_multipolar_ext.so to cctbx_multipolar_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming smtbx_refinement_constraints_ext.so to smtbx_refinement_constraints_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming mmtbx_dssp_ext.so to mmtbx_dssp_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming iotbx_dtrek_ext.so to iotbx_dtrek_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_array_family_flex_ext.so to cctbx_array_family_flex_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming rstbx_indexing_api_ext.so to rstbx_indexing_api_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming dxtbx_format_image_ext.so to dxtbx_format_image_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming boost_adaptbx_graph_breadth_first_search_ext.so to boost_adaptbx_graph_breadth_first_search_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming scitbx_array_family_flex_ext.so to scitbx_array_family_flex_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming scitbx_cubicle_neighbors_ext.so to scitbx_cubicle_neighbors_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming mmtbx_geometry_asa_ext.so to mmtbx_geometry_asa_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_eltbx_xray_scattering_ext.so to cctbx_eltbx_xray_scattering_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_geometry_ext.so to cctbx_geometry_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming mmtbx_geometry_indexing_ext.so to mmtbx_geometry_indexing_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming boost_adaptbx_graph_utility_ext.so to boost_adaptbx_graph_utility_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_translation_search_ext.so to cctbx_translation_search_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming dxtbx_masking_ext.so to dxtbx_masking_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming mmtbx_alignment_ext.so to mmtbx_alignment_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming mmtbx_geometry_primitive_ext.so to mmtbx_geometry_primitive_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_adp_restraints_ext.so to cctbx_adp_restraints_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming scitbx_math_ext.so to scitbx_math_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming gltbx_fonts_ext.so to gltbx_fonts_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming mmtbx_rotamer_fit_ext.so to mmtbx_rotamer_fit_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming scitbx_wigner_ext.so to scitbx_wigner_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming mmtbx_tls_ext.so to mmtbx_tls_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming scitbx_linalg_ext.so to scitbx_linalg_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cbflib_ext.so to cbflib_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_symmetry_search_ext.so to cctbx_symmetry_search_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming gltbx_glu_ext.so to gltbx_glu_ext.cpython-314-x86_64-linux-gnu.so I: dh_python3 fs:524: renaming cctbx_covariance_ext.so to cctbx_covariance_ext.cpython-314-x86_64-linux-gnu.so D: dh_python3 fs:199: Writing INSTALLER in debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx-3.28.0.dist-info D: dh_python3 fs:210: Deleting RECORD in debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx-3.28.0.dist-info D: dh_python3 fs:199: Writing INSTALLER in debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx-2023.12.dist-info D: dh_python3 fs:210: Deleting RECORD in debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx-2023.12.dist-info D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.find_under_build): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/molprobity.ramalyze): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/iotbx.shelx.as_xray_structure): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/serialtbx.python): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.find_pdb_mmcif_problems): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/iotbx.cns.reflection_reader): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/mmtbx.find_residue_in_pdb): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.find_unused_imports): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.bibtex): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.mask): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/iotbx.cbf_read): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.list_source_files_sorted_by_size): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.kinemage): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/iotbx.python): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/smtbx.benchmark_refinement): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/dxtbx.show_matching_formats): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/mmtbx.debugging.hydrogenate): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/iotbx.shelx.as_cif): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/dxtbx.detector_superpose): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/smtbx.show_dist_paths): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.show_variable_names): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/iotbx.xplor.map.show_summary): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/mmtbx.xtriage_gui): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/distl.image_viewer): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/iotbx.cif.as_xray_structure): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/mmtbx.development.water_b_factors): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/boost.show_build_path): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/mmtbx.matthews): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.start_process): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.create_cctbx_bundle_for_installer): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.cif_as_mtz): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/crys3d.qttbx.view_structure): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/dxtbx.saturation): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/mmtbx.probe2): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/iotbx.cif.as_miller_arrays): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/mmtbx.python): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/smtbx.python): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/cctbx.show_build_path): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.rna_validate_bonds): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/iotbx.r_free_flags_as_cns): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/cctbx.find_distances): cannot parse binary file D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/molprobity.molprobity): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/mmtbx.development.validate_ligands): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/iotbx.build_phil_cache): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.any2unix): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/gltbx.try_imports): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.auto_sharpen): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.model_map): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.real_space_correlation): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phasertng.HKLviewer): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/iotbx.dtrek.to_cns): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/cctbx.wxpython): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/cctbx.brehm_diederichs): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/cctbx_regression.test_nightly): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/mmtbx.super): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.path_utility): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.rna_validate_suites): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/iotbx.cns.transfer_crystal_symmetry): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.find_clutter): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/mmtbx.select_best_starting_model): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/iotbx.pdb.superpose_centers_of_mass): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.tcsh): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/cctbx.structure_factor_timings): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.emma): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.show_python_sys_executable): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/mmtbx.development.ligand_restraints_validation): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/mmtbx.ss_idealization): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.cbetadev): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/mmtbx.show_dist_paths): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.csv_as_mtz): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.pdb_editor): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.raise_exception_for_testing): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/dxtbx.image_average): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.hbond): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/dxtbx.show_registry): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.comparama): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/mmtbx.show_r_factors_by_shell): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.dynamics): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.assert_stdin): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.install): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.f000): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.show_bin_path): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/mmtbx.search_pdb_symmetry): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.extract_code_from_txt): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.rna_validate_puckers): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/iotbx.simple_map_coefficients): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/rstbx.python): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/mmtbx.bfactor_plot): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/dev.dxtbx.read_sequence): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.unique_with_biomt): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.omegalyze): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.pdb.mtrix_reconstruction): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/iotbx.cif_as_mtz): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/cctbx.version): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/cbflib.show_build_path): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.py_compile_all): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.map_to_model_histogram): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/mmtbx.validation_summary): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/cctbx.suitename_old): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/boost_adaptbx.divide_by_zero): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.tls): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/molprobity.rotalyze): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/rstbx.index): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.find_files): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.HKLinfo): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.suitename_old): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.real_space_diff_map): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/mmtbx.process_predicted_model): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/wxtbx.anomalous_differences_histogram): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/dxtbx.display_parallax_correction): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/cctbx.eltbx.show_fp_fdp): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.pdbtools): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.cc_star): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/boost.show_dist_paths): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/fable.fem_include_search_paths): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/rstbx.simage.solver): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.process_predicted_model): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.unpack_in_sources): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/wxtbx.show_dist_paths): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/mmtbx.xtriage): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/molprobity.clashscore2): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/spotfinder.show_dist_paths): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/dxtbx.radial_average): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/dxtbx.show_mask_info): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/mmtbx.undowser2_validation): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/wxtbx.show_build_path): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.refresh): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/iotbx.pdb.join_fragment_files): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/boost.lcm): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.rama_z): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/molprobity.rna_validate_bonds): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/wxtbx.show_file_info): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/boost_adaptbx.inexact): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/crys3d.python): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/cctbx.make_install_HKLviewer_ChimeraX): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/cbflib.python): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.undowser_validation): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/cctbx.subgroups): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.remove_outliers): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.secondary_structure_restraints): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.show_env): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/mmtbx.model_vs_sequence): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.sort_hetatms): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.help): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/iotbx.cif.validate): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/mmtbx.reduce2): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/iotbx.shelx.dump_as_python): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/omptbx.python): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.cablam_idealization): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/wxtbx.python): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.show_tests): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.exec): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/rstbx.simage.create): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.compare_datasets): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/dxtbx.print_header): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/annlib.python): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/iotbx.show_dist_paths): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.map_to_structure_factors): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.prime_factors_of): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/labelit.png): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.cns_as_mtz): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.run_tests_parallel): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.gdb): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/cctbx.show_dist_paths): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/mmtbx.distance_difference): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.rotalyze): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/mmtbx.table_one): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.find_unused_imports_crude): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/mmtbx.altloc_remediate): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.tls_analysis): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/boost_adaptbx.nested_cpp_loops_with_check_signals): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.pdb_interpretation): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/mmtbx.pdb_interpretation): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.assert_stdin_does_not_contain_strings): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.show_but_no_repr): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/distl.thin_client): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.printenv): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/crys3d.show_dist_paths): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.r_factor_statistics): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/mmtbx.rigid_bond_test): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.show_module_dependencies): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/molprobity.cablam): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.mtz_as_cif): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/distl.sweep_strength): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/molprobity.barbed_wire_analysis): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.secondary_structure_validation): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/scitbx.unicode_examples): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/iotbx.poscar_as_xray_structure): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.mtz2map): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.show_build_options): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/dxtbx.install_format): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.create_selfx): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.fab_elbow_angle): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/dxtbx.overload): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.install_conda): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.find_untested): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.explore_metric_symmetry): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.sisa): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/fable.cout): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.pdb_atom_selection): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.clean_clutter): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/boost_adaptbx.show_platform_info): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/cxi.image_average): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.map_comparison): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/cctbx.lattice_symmetry): cannot parse binary file D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/mmtbx.development.electrons): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.seconds_since_the_epoch): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.show_repository_paths): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.chunk): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.map_box): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.xtriage): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.data_viewer): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/mmtbx.rebuild_rotarama_cache): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/cctbx.convert_ccp4_symop_lib): cannot parse binary file D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/iotbx.r_free_flags_completion_simple): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/cma_es.python): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/mmtbx.rebuild_cablam_cache): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/cma_es.show_build_path): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/iotbx.merging_statistics): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.suitename): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/wxtbx.inspect_r_free_flags): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/molprobity.mp_validate_bonds): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.show_host_and_user): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/cctbx.wavelength_units): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/mmtbx.prepare_pdb_deposition): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.wait_for_file): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.phil): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.resource_monitor_plot): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.image_viewer): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/iotbx.symmetry_search): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.polder): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.model_model_distances): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/mmtbx.clashscore2): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/molprobity.suitename_old): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/fable.python): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/mmtbx.plan_sad_experiment): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.fake_f_obs): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/annlib.show_build_path): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/scitbx.show_dist_paths): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/iotbx.pdb.split_models): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/iotbx.pdb.sort_atoms): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.fem): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.geometry_minimization): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/iotbx.reflection_file_reader): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/scitbx.show_sizes): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/iotbx.pdb.add_conformations): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/boost.python): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/iotbx.split_data_cif): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/samosa.join): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/mmtbx.fft): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/mmtbx.debugging.riding): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/cctbx.sys_abs_equiv_space_groups): cannot parse binary file D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.fft): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/iotbx.distance_least_squares): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.cablam): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/iotbx.cns.sdb_reader): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.analyse_code_comments): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.HKLviewer): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.check_libcpp): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.sh): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.show_date_and_time): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/molprobity.cbetadev): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.remote_processing): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/molprobity.suitename): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.create_installer): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.molprobity): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.feature_enhanced_map): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/mmtbx.density_modification): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/smtbx.masks): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/omptbx.show_build_path): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/sphinx.build): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.csh): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/dxtbx.show_dist_paths): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/iotbx.file_reader): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/mmtbx.show_build_path): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/cctbx.cod_select_and_pickle): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/serialtbx.show_build_path): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/gltbx.show_dist_paths): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/distl.mp_spotfinder_server_read_file): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.sge_available_slots): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.fmodel): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/mmtbx.emringer_score): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/iotbx.pdb_as_fasta): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.epydoc_run): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/cctbx.image_viewer): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/cctbx.plot_anomalous_scattering): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/ccp4io.show_build_path): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.import_all_python): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/dxtbx.python): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/dev.dxtbx.debug_memory): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.assert_stdin_ends_with): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/cctbx.HKLviewer): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.reindex): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/fable.show_build_path): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/fable.show_calls): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/mmtbx.holton_geometry_validation): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.scons): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/cbf.dump): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.show_numpy_version): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.add_docstrings_with_ai): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/cctbx.space_group_info): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.import_all_ext): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.rank_scale_map): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/mmtbx.find_peaks_holes): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.make_sphinx_html): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/mmtbx.apply_ncs_to_ligand): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/cctbx_blobs): cannot parse binary file D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/cctbx.show_systematic_absences): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/cctbx.patterson_map): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.reindent): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/iotbx.unique_with_biomt): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.show_full_command_path): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.holton_geometry_validation): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/rstbx.show_dist_paths): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.french_wilson): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.show_all_on_path): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/iotbx.french_wilson): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/dxtbx.show_build_path): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/scitbx.show_build_path): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/scitbx.show_exp_times): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/iotbx.pdb.as_xray_structure): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.clashscore2): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/iotbx.dano_as_amplitudes): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/iotbx.pdb_remediator): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/iotbx.fetch_pdb): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.perigee): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.easy_qsub): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.show_python_dependencies): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.reduce_cryoem_resolution): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.segment_and_split_map): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/mmtbx.rama_z): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.bundle_as_exe): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/ccp4io.show_dist_paths): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/mmtbx.TAAM_minus_IAM): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.resolution): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.show_dist_paths): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/rstbx.show_build_path): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/iotbx.reflection_file_converter): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.form_factor_query): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.line_count): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.xmanip): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/iotbx.reflection_file_editor): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/iotbx.pdb.print_sequence): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/mmtbx.refine_anomalous_substructure): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.reflection_file_converter): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.show_lib_path): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.cif_as_pdb): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/samosa.scale): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/molprobity.rna_validate_puckers): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.create_windows_exe): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.env_run): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/molprobity.undowser_validation): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/iotbx.phil): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/boost_adaptbx.segmentation_fault): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/iotbx.crystal_symmetry_from_any): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/boost_adaptbx.show_environ_usage): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.development.xtrapol8): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/molprobity.clashscore): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.mp_validate_bonds): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/cctbx.sym_equiv_sites): cannot parse binary file D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.fobs_minus_fobs_map): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/fable.show_dist_paths): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.ramalyze): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/rstbx.simage.explore_completeness): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.show_environ_usage): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/mmtbx.quantum_interface): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.models_as_chains): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.bash): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/wxtbx.xtriage): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/distl.signal_strength): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/scitbx.apply_tapenade_hints): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.rna_validate): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.start_binary_bundle): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/boost.gcd): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.angle): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.assert_stdin_contains_strings): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/dxtbx.dlsnxs2cbf): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/mmtbx.massage_data): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/mmtbx.nonbonded_overlaps): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/smtbx.show_build_path): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/iotbx.pdb.link_as_geometry_restraints_edits): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/mmtbx.mon_lib_cif_triage): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/mmtbx.development.qscore): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/mmtbx.mp_geo): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.clashscore): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.helix_sheet_recs_as_pdb_files): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.show_include_paths): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.show_commands): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/spotfinder.show_build_path): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/molprobity.kinemage): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.create_install_script_bat): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.diffuse): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.barbed_wire_analysis): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/molprobity.undowser2_validation): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/mmtbx.pdb_statistics): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/molprobity.probescore_ligand): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.dtrace): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/dxtbx.any2nexus): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.pdflatex): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/cbflib.tst_memory): cannot parse binary file D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.show_numeric_version): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.model_vs_sequence): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.parallel_simple): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/iotbx.get_pubmed_citation): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/iotbx.show_distances): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.TAAM_minus_IAM): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.model_vs_map): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/scitbx.python): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/cma_es.show_dist_paths): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/rstbx.simage.wx_display): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/cctbx.data_viewer): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.assert_line_count): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.development.next_gen_atom_typing): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.show_pythonpath): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.example_viewer): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.show_number_of_processors): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/molprobity.rna_validate): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/iotbx.pdb_labels_comparison): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/cxi.image2pickle): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/smtbx.absolute_structure): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.show_build_path): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/mmtbx.arginine_geometry): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/cctbx.python): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/molprobity.chiral_validation): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/serialtbx.show_dist_paths): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.pdb.hierarchy): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.pdb_cif_conversion): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.find_peaks_holes): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.pdb_as_cif): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.validate_H): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/gltbx.python): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.create_unzipsfx): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.sge_qstat_counts): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.find_tls_groups): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.mtz.dump): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/iotbx.export_scalepack_unmerged): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/cctbx.visualize_r_factors): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/mmtbx.where_is_that_cif_file): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.list_modules): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/iotbx.mtz.dump): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/spotfinder.python): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/mmtbx.superpose): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/gltbx.show_build_path): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.undowser2_validation): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/cctbx.multiplicity_viewer): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.create_mac_app): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/smtbx.refine): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.maximum_entropy_map): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.pdb.b_factor_stats): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/iotbx.emma): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.emringer): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/boost_adaptbx.double_overflow): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/mmtbx.reduce_cryoem_resolution): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.make_dist): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/distl.find_active_area): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.remove_unused_imports): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.configure): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.find_in_repositories): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/ccp4io.python): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/iotbx.pdb.box_around_molecule): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.fetch_pdb): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.reflection_statistics): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.clear_paths): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/iotbx.pdb.flip_symmetric_amino_acids): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/scitbx.histogram): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.latex): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.maps): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/mmtbx.ribbons): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/mmtbx.ringer): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.tls_as_xyz): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/iotbx.pdb.show_connectivity): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/iotbx.pdb_labels_diff): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/fable.split): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.grow_density): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/mmtbx.estimate_bijvoet_ratio): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.git_avoid_merges): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.reciprocal_space_arrays): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/iotbx.pdb.superpose_atoms_by_name): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.bootstrap): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/mmtbx.development.aev): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/smtbx.anom_refine): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.find_reticular_twin_laws): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.find_reserved_names): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.pdb.biomt_reconstruction): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/iotbx.r_free_flags_accumulation): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.development.valence_simple): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.merging_statistics): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/fable.insert_write_at_start_of_each_procedure): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/omptbx.show_dist_paths): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/mmtbx.verify_mon_lib_data): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/mmtbx.model_vs_data): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/cctbx.suitename): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/annlib.show_dist_paths): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.bundle_as_selfx): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.run_pickled_function): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.model_idealization): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/dxtbx.plot_detector_models): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/molprobity.omegalyze): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/iotbx.lattice_symmetry): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/iotbx.show_build_path): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/molprobity.rna_validate_suites): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/cctbx.getting_started): cannot parse binary file D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/dxtbx.depends_on): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/cctbx.loggraph): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/cbflib.show_dist_paths): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/mmtbx.prune_model): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/dxtbx.print_matching_images): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/iotbx.cif_as_pdb): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.assert_not_show_diff): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/crys3d.show_build_path): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/phenix.chiral_validation): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.find_old_style_classes): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/boost_adaptbx.int_overflow): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/fable.read): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.valgrind): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.remove_tree): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/wxtbx.plan_sad_experiment): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/cctbx.HKLinfo): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.list_files): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.nequal): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/cctbx.web.install): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/cctbx.precession_view): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/libtbx.python): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/scitbx.generate_error_h): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/dxtbx.image2pickle): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/cctbx.euclidean_model_matching): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/iotbx.blast_pdb): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/crys3d.model_viewer): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/iotbx.pdb.insert_scale_records): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:115: fix_shebang (debian/python3-cctbx/usr/bin/iotbx.pdb.get_citation): doesn't look like a shebang: #! /bin/sh D: dh_python3 fs:414: package python3-cctbx details = {'requires.txt': set(), 'egg-info': set(), 'dist-info': {'debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx-2023.12.dist-info/METADATA', 'debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx-3.28.0.dist-info/METADATA'}, 'nsp.txt': set(), 'shebangs': set(), 'public_vers': {Version('3')}, 'private_dirs': {}, 'compile': True, 'ext_vers': {Version('3.14'), Version('3.13')}, 'ext_stableabi': set(), 'ext_no_version': set()} D: dh_python3 depends:148: generating dependencies for package python3-cctbx D: dh_python3 pydist:237: trying to find dependency for hdf5plugin (python=None) D: dh_python3 pydist:281: dependency: module hdf5plugin is known to pydist: [PyDist(name='hdf5plugin', versions={Version('3.14'), Version('3.13')}, dependency='python3-hdf5plugin', standard=None, rules=[])] D: dh_python3 pydist:365: dependency: included in build-deps D: dh_python3 pydist:237: trying to find dependency for h5py (python=None) D: dh_python3 pydist:281: dependency: module h5py is known to pydist: [PyDist(name='h5py', versions={Version('3.14'), Version('3.13')}, dependency='python3-h5py', standard='PEP386', rules=[]), PyDist(name='h5py', versions={Version('3.14'), Version('3.13')}, dependency='python3-h5py', standard=None, rules=[])] D: dh_python3 pydist:358: dependency: included in build-deps with limits D: dh_python3 pydist:237: trying to find dependency for numpy (python=None) D: dh_python3 pydist:281: dependency: module numpy is known to pydist: [PyDist(name='numpy', versions={Version('3.14'), Version('3.13')}, dependency='python3-numpy', standard=None, rules=[])] D: dh_python3 pydist:365: dependency: included in build-deps D: dh_python3 pydist:237: trying to find dependency for matplotlib (python=None) D: dh_python3 pydist:281: dependency: module matplotlib is known to pydist: [PyDist(name='matplotlib', versions={Version('3.14'), Version('3.13')}, dependency='python3-matplotlib', standard=None, rules=[])] D: dh_python3 pydist:365: dependency: included in build-deps D: dh_python3 pydist:237: trying to find dependency for mrcfile (python=None) D: dh_python3 pydist:281: dependency: module mrcfile is known to pydist: [PyDist(name='mrcfile', versions={Version('3.14'), Version('3.13')}, dependency='python3-mrcfile', standard=None, rules=[])] D: dh_python3 pydist:365: dependency: included in build-deps D: dh_python3 pydist:237: trying to find dependency for natsort (python=None) D: dh_python3 pydist:281: dependency: module natsort is known to pydist: [PyDist(name='natsort', versions={Version('3.14'), Version('3.13')}, dependency='python3-natsort', standard=None, rules=[])] D: dh_python3 pydist:365: dependency: included in build-deps D: dh_python3 pydist:237: trying to find dependency for nxmx (python=None) D: dh_python3 pydist:281: dependency: module nxmx is known to pydist: [PyDist(name='nxmx', versions={Version('3.14'), Version('3.13')}, dependency='python3-nxmx', standard=None, rules=[])] D: dh_python3 pydist:365: dependency: included in build-deps D: dh_python3 pydist:237: trying to find dependency for ordered_set (python=None) D: dh_python3 pydist:281: dependency: module ordered-set is known to pydist: [PyDist(name='ordered-set', versions={Version('3.14'), Version('3.13')}, dependency='python3-ordered-set', standard=None, rules=[])] D: dh_python3 pydist:365: dependency: included in build-deps D: dh_python3 pydist:237: trying to find dependency for pint (python=None) D: dh_python3 pydist:281: dependency: module pint is known to pydist: [PyDist(name='pint', versions={Version('3.14'), Version('3.13')}, dependency='python3-pint', standard=None, rules=[])] D: dh_python3 pydist:365: dependency: included in build-deps D: dh_python3 pydist:237: trying to find dependency for procrunner (python=None) D: dh_python3 pydist:281: dependency: module procrunner is known to pydist: [PyDist(name='procrunner', versions={Version('3.14'), Version('3.13')}, dependency='python3-procrunner', standard=None, rules=[])] D: dh_python3 pydist:365: dependency: included in build-deps D: dh_python3 pydist:237: trying to find dependency for pymol (python=None) D: dh_python3 pydist:281: dependency: module pymol is known to pydist: [PyDist(name='pymol', versions={Version('3.14'), Version('3.13')}, dependency='python3-pymol', standard=None, rules=[])] D: dh_python3 pydist:365: dependency: included in build-deps D: dh_python3 pydist:237: trying to find dependency for requests (python=None) D: dh_python3 pydist:281: dependency: module requests is known to pydist: [PyDist(name='requests', versions={Version('3.14'), Version('3.13')}, dependency='python3-requests', standard=None, rules=[])] D: dh_python3 pydist:365: dependency: included in build-deps D: dh_python3 pydist:237: trying to find dependency for scipy (python=None) D: dh_python3 pydist:281: dependency: module scipy is known to pydist: [PyDist(name='scipy', versions={Version('3.14'), Version('3.13')}, dependency='python3-scipy', standard=None, rules=[])] D: dh_python3 pydist:365: dependency: included in build-deps D: dh_python3 pydist:237: trying to find dependency for six (python=None) D: dh_python3 pydist:281: dependency: module six is known to pydist: [PyDist(name='six', versions={Version('3.14'), Version('3.13')}, dependency='python3-six', standard='PEP386', rules=[]), PyDist(name='six', versions={Version('3.14'), Version('3.13')}, dependency='python3-six', standard=None, rules=[])] D: dh_python3 pydist:365: dependency: included in build-deps D: dh_python3 pydist:237: trying to find dependency for PIL (python=None) D: dh_python3 pydist:281: dependency: module pil is known to pydist: [PyDist(name='pil', versions={Version('3.14'), Version('3.13')}, dependency='python3-pil', standard=None, rules=[]), PyDist(name='pil', versions={Version('3.14'), Version('3.13')}, dependency='python3-pil', standard=None, rules=[])] D: dh_python3 pydist:365: dependency: included in build-deps D: dh_python3 pydist:237: trying to find dependency for tqdm (python=None) D: dh_python3 pydist:281: dependency: module tqdm is known to pydist: [PyDist(name='tqdm', versions={Version('3.14'), Version('3.13')}, dependency='python3-tqdm', standard=None, rules=[])] D: dh_python3 pydist:365: dependency: included in build-deps D: dh_python3 pydist:237: trying to find dependency for wxPython (python=None) D: dh_python3 pydist:281: dependency: module wxpython is known to pydist: [PyDist(name='wxpython', versions={Version('3.14'), Version('3.13')}, dependency='python3-wxgtk4.0', standard=None, rules=[])] D: dh_python3 pydist:365: dependency: included in build-deps D: dh_python3 depends:330: D={'python3-requests', 'python3-procrunner', 'python3-matplotlib', 'python3-hdf5plugin', 'python3-h5py (>= 3)', 'python3-pymol', 'python3 (<< 3.15)', 'python3-wxgtk4.0', 'python3-mrcfile', 'python3-numpy', 'python3-tqdm', 'python3-nxmx', 'python3-natsort', 'python3-six', 'python3-pint', 'python3-scipy', 'python3 (>= 3.13~)', 'python3:any', 'python3-pil', 'python3-ordered-set'}; R=[]; S=[]; E=[], B=[]; RT=[] dh_installsystemduser -a -O--buildsystem=pybuild dh_lintian -a -O--buildsystem=pybuild install -m0755 -d debian/python3-cctbx/usr/share/lintian/overrides install -p -m0644 debian/python3-cctbx.lintian-overrides debian/python3-cctbx/usr/share/lintian/overrides/python3-cctbx dh_perl -a -O--buildsystem=pybuild rm -f debian/libcctbx-dev.debhelper.log debian/libcctbx0.debhelper.log debian/python3-cctbx.debhelper.log debian/rules override_dh_link make[1]: Entering directory '/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1' dh_auto_build -- -s custom --build-args="dh_link -p libcctbx-dev usr/include/cctbx usr/lib/cctbx/python{version}/include" pybuild --build -i python{version} -p "3.14 3.13" -s custom --build-args="dh_link -p libcctbx-dev usr/include/cctbx usr/lib/cctbx/python{version}/include" --parallel=6 I: pybuild base:385: dh_link -p libcctbx-dev usr/include/cctbx usr/lib/cctbx/python3.14/include rm -f debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libann_adaptor.so ln -s libann_adaptor.so.0.0.1 debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libann_adaptor.so rm -f debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libomptbx.so ln -s libomptbx.so.0.0.1 debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libomptbx.so rm -f debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libscitbx_slatec.so ln -s libscitbx_slatec.so.0.0.1 debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libscitbx_slatec.so rm -f debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libiotbx_xplor.so ln -s libiotbx_xplor.so.0.0.1 debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libiotbx_xplor.so rm -f debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libspotfinder.so ln -s libspotfinder.so.0.0.1 debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libspotfinder.so rm -f debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libasymmetric_map.so ln -s libasymmetric_map.so.0.0.1 debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libasymmetric_map.so rm -f debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libsmtbx_refinement_constraints.so ln -s libsmtbx_refinement_constraints.so.0.0.1 debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libsmtbx_refinement_constraints.so rm -f debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libscitbx_boost_python.so ln -s libscitbx_boost_python.so.0.0.1 debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libscitbx_boost_python.so rm -f debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libmmtbx_masks.so ln -s libmmtbx_masks.so.0.0.1 debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libmmtbx_masks.so rm -f debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libmmtbx_tls.so ln -s libmmtbx_tls.so.0.0.1 debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libmmtbx_tls.so rm -f debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libiotbx_pdb.so ln -s libiotbx_pdb.so.0.0.1 debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libiotbx_pdb.so rm -f debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/librstbx.so ln -s librstbx.so.0.0.1 debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/librstbx.so rm -f debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libscitbx_minpack.so ln -s libscitbx_minpack.so.0.0.1 debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libscitbx_minpack.so rm -f debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libcctbx.so ln -s libcctbx.so.0.0.1 debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libcctbx.so rm -f debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libcbf-private.so ln -s libcbf-private.so.0.0.1 debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libcbf-private.so rm -f debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libdxtbxspotfinder.so ln -s libdxtbxspotfinder.so.0.0.1 debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libdxtbxspotfinder.so rm -f debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libccp4io.so ln -s libccp4io.so.0.0.1 debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libccp4io.so rm -f debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libcctbx_sgtbx_asu.so ln -s libcctbx_sgtbx_asu.so.0.0.1 debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libcctbx_sgtbx_asu.so rm -f debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libiotbx_mtz.so ln -s libiotbx_mtz.so.0.0.1 debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libiotbx_mtz.so install -m0755 -d debian/libcctbx-dev/usr/lib/cctbx/python3.14 rm -f debian/libcctbx-dev/usr/lib/cctbx/python3.14/include ln -s ../../../include/cctbx debian/libcctbx-dev/usr/lib/cctbx/python3.14/include I: pybuild base:385: dh_link -p libcctbx-dev usr/include/cctbx usr/lib/cctbx/python3.13/include rm -f debian/libcctbx-dev/usr/lib/cctbx/python3.14/include ln -s ../../../include/cctbx debian/libcctbx-dev/usr/lib/cctbx/python3.14/include rm -f debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libann_adaptor.so ln -s libann_adaptor.so.0.0.1 debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libann_adaptor.so rm -f debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libomptbx.so ln -s libomptbx.so.0.0.1 debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libomptbx.so rm -f debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libscitbx_slatec.so ln -s libscitbx_slatec.so.0.0.1 debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libscitbx_slatec.so rm -f debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libiotbx_xplor.so ln -s libiotbx_xplor.so.0.0.1 debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libiotbx_xplor.so rm -f debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libspotfinder.so ln -s libspotfinder.so.0.0.1 debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libspotfinder.so rm -f debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libasymmetric_map.so ln -s libasymmetric_map.so.0.0.1 debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libasymmetric_map.so rm -f debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libsmtbx_refinement_constraints.so ln -s libsmtbx_refinement_constraints.so.0.0.1 debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libsmtbx_refinement_constraints.so rm -f debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libscitbx_boost_python.so ln -s libscitbx_boost_python.so.0.0.1 debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libscitbx_boost_python.so rm -f debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libmmtbx_masks.so ln -s libmmtbx_masks.so.0.0.1 debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libmmtbx_masks.so rm -f debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libmmtbx_tls.so ln -s libmmtbx_tls.so.0.0.1 debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libmmtbx_tls.so rm -f debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libiotbx_pdb.so ln -s libiotbx_pdb.so.0.0.1 debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libiotbx_pdb.so rm -f debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/librstbx.so ln -s librstbx.so.0.0.1 debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/librstbx.so rm -f debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libscitbx_minpack.so ln -s libscitbx_minpack.so.0.0.1 debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libscitbx_minpack.so rm -f debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libcctbx.so ln -s libcctbx.so.0.0.1 debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libcctbx.so rm -f debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libcbf-private.so ln -s libcbf-private.so.0.0.1 debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libcbf-private.so rm -f debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libdxtbxspotfinder.so ln -s libdxtbxspotfinder.so.0.0.1 debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libdxtbxspotfinder.so rm -f debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libccp4io.so ln -s libccp4io.so.0.0.1 debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libccp4io.so rm -f debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libcctbx_sgtbx_asu.so ln -s libcctbx_sgtbx_asu.so.0.0.1 debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libcctbx_sgtbx_asu.so rm -f debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libiotbx_mtz.so ln -s libiotbx_mtz.so.0.0.1 debian/libcctbx-dev/usr/lib/x86_64-linux-gnu/libiotbx_mtz.so install -m0755 -d debian/libcctbx-dev/usr/lib/cctbx/python3.13 rm -f debian/libcctbx-dev/usr/lib/cctbx/python3.13/include ln -s ../../../include/cctbx debian/libcctbx-dev/usr/lib/cctbx/python3.13/include make[1]: Leaving directory '/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1' dh_strip_nondeterminism -a -O--buildsystem=pybuild Using 1778336580 as canonical time Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Ni2+_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Pt_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Fe2+_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Cr3+_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Cd2+_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Ba_electron.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Ag_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Au_electron.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/F_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/D1-_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Au_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/O_electron.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Ba_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/N_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/O_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Hg_electron.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Co_electron.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/O2-_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/H1-_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/O1-_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/N_electron.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Hg_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Au3+_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Mo5+_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Cr2+_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Mg_electron.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Ti3+_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Mo_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/H_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Ti_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Mn_electron.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Zn2+_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Mo3+_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/F_electron.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Ti4+_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/K1+_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Li_electron.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Li1+_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Cu1+_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Ca_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx/bioinformatics/test/ncbi_blast.xml.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx/bioinformatics/test/ebi_blast.xml.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Au1+_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Al3+_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Mn3+_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/H_electron.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Pt4+_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Se_electron.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/B_electron.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Cr_electron.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Ag1+_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/D_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Cd_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/K_electron.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/I_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/P_electron.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Mn_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Zn_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Mn4+_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Ti_electron.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Fe_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Cu2+_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Al_electron.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Br_electron.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Cl_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Cl1-_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Si_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/P_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Hg2+_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Ni_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Cu_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Ca_electron.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/F1-_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Mo6+_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/T1-_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Na_electron.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Na1+_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Cu_electron.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Ca2+_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/C_electron.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Na_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Si4+_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/S_electron.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/K_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Ba2+_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Cl_electron.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Zn_electron.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/I_electron.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Ag_electron.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/B_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Ag2+_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Co_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Se_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Ni3+_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Cd_electron.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Br1-_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Mo_electron.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Si_electron.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Cr_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Ti2+_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/C_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Fe3+_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Pt2+_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Co2+_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Ni_electron.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Al_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Pt_electron.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Hg1+_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Mg2+_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Li_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Fe_electron.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/S_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Mg_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Co3+_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/I1-_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Br_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/Mn2+_wk1995.json.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx/maptbx/bcr/tables/T_wk1995.json.gz using File::StripNondeterminism::handlers::gzip dh_compress -a -O--buildsystem=pybuild cd debian/libcctbx-dev cd debian/libcctbx0 cd debian/python3-cctbx chmod a-x usr/share/doc/python3-cctbx/changelog usr/share/doc/python3-cctbx/changelog.Debian chmod a-x usr/share/doc/libcctbx-dev/changelog usr/share/doc/libcctbx-dev/changelog.Debian gzip -9nf usr/share/doc/libcctbx-dev/changelog usr/share/doc/libcctbx-dev/changelog.Debian gzip -9nf usr/share/doc/python3-cctbx/changelog usr/share/doc/python3-cctbx/changelog.Debian chmod a-x usr/share/doc/libcctbx0/changelog usr/share/doc/libcctbx0/changelog.Debian gzip -9nf usr/share/doc/libcctbx0/changelog usr/share/doc/libcctbx0/changelog.Debian cd '/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1' cd '/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1' cd '/build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1' dh_fixperms -a -O--buildsystem=pybuild find debian/libcctbx0 ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s find debian/libcctbx-dev ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s find debian/python3-cctbx ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s find debian/libcctbx0/usr/share/doc -type f -a -true -a ! -regex 'debian/libcctbx0/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 find debian/libcctbx0/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 find debian/libcctbx-dev/usr/share/doc -type f -a -true -a ! -regex 'debian/libcctbx-dev/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 find debian/libcctbx0 -type f \( -name '*.so.*' -o -name '*.so' -o -name '*.la' -o -name '*.a' -o -name '*.js' -o -name '*.css' -o -name '*.scss' -o -name '*.sass' -o -name '*.jpeg' -o -name '*.jpg' -o -name '*.png' -o -name '*.gif' -o -name '*.cmxs' -o -name '*.node' \) -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/libcctbx-dev/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 find debian/libcctbx-dev/usr/include -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/libcctbx0/usr/lib -type f -name '*.ali' -a -true -a -true -print0 2>/dev/null | xargs -0r chmod uga-w find debian/libcctbx-dev -type f \( -name '*.so.*' -o -name '*.so' -o -name '*.la' -o -name '*.a' -o -name '*.js' -o -name '*.css' -o -name '*.scss' -o -name '*.sass' -o -name '*.jpeg' -o -name '*.jpg' -o -name '*.png' -o -name '*.gif' -o -name '*.cmxs' -o -name '*.node' \) -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/libcctbx-dev/usr/lib -type f -name '*.ali' -a -true -a -true -print0 2>/dev/null | xargs -0r chmod uga-w find debian/python3-cctbx/usr/share/doc -type f -a -true -a ! -regex 'debian/python3-cctbx/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 find debian/python3-cctbx/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 find debian/python3-cctbx/usr/share/lintian/overrides -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/python3-cctbx -type f \( -name '*.so.*' -o -name '*.so' -o -name '*.la' -o -name '*.a' -o -name '*.js' -o -name '*.css' -o -name '*.scss' -o -name '*.sass' -o -name '*.jpeg' -o -name '*.jpg' -o -name '*.png' -o -name '*.gif' -o -name '*.cmxs' -o -name '*.node' \) -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/python3-cctbx/usr/bin -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod a+x find debian/python3-cctbx/usr/lib -type f -name '*.ali' -a -true -a -true -print0 2>/dev/null | xargs -0r chmod uga-w dh_missing -a -O--buildsystem=pybuild dh_dwz -a -O--buildsystem=pybuild install -m0755 -d debian/libcctbx0/usr/lib/debug/.dwz/x86_64-linux-gnu dwz -mdebian/libcctbx0/usr/lib/debug/.dwz/x86_64-linux-gnu/libcctbx0.debug -M/usr/lib/debug/.dwz/x86_64-linux-gnu/libcctbx0.debug -- debian/libcctbx0/usr/lib/x86_64-linux-gnu/libann_adaptor.so.0.0.1 debian/libcctbx0/usr/lib/x86_64-linux-gnu/libasymmetric_map.so.0.0.1 debian/libcctbx0/usr/lib/x86_64-linux-gnu/libcbf-private.so.0.0.1 debian/libcctbx0/usr/lib/x86_64-linux-gnu/libccp4io.so.0.0.1 debian/libcctbx0/usr/lib/x86_64-linux-gnu/libcctbx.so.0.0.1 debian/libcctbx0/usr/lib/x86_64-linux-gnu/libcctbx_sgtbx_asu.so.0.0.1 debian/libcctbx0/usr/lib/x86_64-linux-gnu/libdxtbxspotfinder.so.0.0.1 debian/libcctbx0/usr/lib/x86_64-linux-gnu/libiotbx_mtz.so.0.0.1 debian/libcctbx0/usr/lib/x86_64-linux-gnu/libiotbx_pdb.so.0.0.1 debian/libcctbx0/usr/lib/x86_64-linux-gnu/libiotbx_xplor.so.0.0.1 debian/libcctbx0/usr/lib/x86_64-linux-gnu/libmmtbx_masks.so.0.0.1 debian/libcctbx0/usr/lib/x86_64-linux-gnu/libmmtbx_tls.so.0.0.1 debian/libcctbx0/usr/lib/x86_64-linux-gnu/libomptbx.so.0.0.1 debian/libcctbx0/usr/lib/x86_64-linux-gnu/librstbx.so.0.0.1 debian/libcctbx0/usr/lib/x86_64-linux-gnu/libscitbx_boost_python.so.0.0.1 debian/libcctbx0/usr/lib/x86_64-linux-gnu/libscitbx_minpack.so.0.0.1 debian/libcctbx0/usr/lib/x86_64-linux-gnu/libscitbx_slatec.so.0.0.1 debian/libcctbx0/usr/lib/x86_64-linux-gnu/libsmtbx_refinement_constraints.so.0.0.1 debian/libcctbx0/usr/lib/x86_64-linux-gnu/libspotfinder.so.0.0.1 install -m0755 -d debian/python3-cctbx/usr/lib/debug/.dwz/x86_64-linux-gnu dwz -mdebian/python3-cctbx/usr/lib/debug/.dwz/x86_64-linux-gnu/python3-cctbx.debug -M/usr/lib/debug/.dwz/x86_64-linux-gnu/python3-cctbx.debug -- debian/python3-cctbx/usr/bin/cbflib.tst_memory debian/python3-cctbx/usr/bin/cctbx.convert_ccp4_symop_lib debian/python3-cctbx/usr/bin/cctbx.find_distances debian/python3-cctbx/usr/bin/cctbx.getting_started debian/python3-cctbx/usr/bin/cctbx.lattice_symmetry debian/python3-cctbx/usr/bin/cctbx.sym_equiv_sites debian/python3-cctbx/usr/bin/cctbx.sys_abs_equiv_space_groups debian/python3-cctbx/usr/bin/cctbx_blobs debian/python3-cctbx/usr/lib/cctbx/python3.13/boost_adaptbx/tests/tst_optional_copy debian/python3-cctbx/usr/lib/cctbx/python3.13/iotbx/pdb/hybrid_36_fem debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_accessors debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_af_1 debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_af_2 debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_af_3 debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_af_4 debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_af_5 debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_mat3 debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_optional_copy debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_rectangular_full_packed debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_ref_matrix_facet debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_sym_mat3 debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_unsigned_float_arithmetic debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_vec3 debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/error/tst_error debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/lbfgs/tst_lbfgs debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/math/tests/tst debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/matrix/tests/tst_cholesky debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/matrix/tests/tst_givens debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/matrix/tests/tst_householder debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/matrix/tests/tst_svd debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/serialization/tst_base_256 debian/python3-cctbx/usr/lib/cctbx/python3.13/smtbx/refinement/constraints/tests/tst_geometrical_hydrogens debian/python3-cctbx/usr/lib/cctbx/python3.13/smtbx/refinement/constraints/tests/tst_reparametrisation debian/python3-cctbx/usr/lib/cctbx/python3.13/smtbx/refinement/constraints/tests/tst_special_position debian/python3-cctbx/usr/lib/cctbx/python3.14/boost_adaptbx/tests/tst_optional_copy debian/python3-cctbx/usr/lib/cctbx/python3.14/iotbx/pdb/hybrid_36_fem debian/python3-cctbx/usr/lib/cctbx/python3.14/scitbx/array_family/tst_accessors debian/python3-cctbx/usr/lib/cctbx/python3.14/scitbx/array_family/tst_af_1 debian/python3-cctbx/usr/lib/cctbx/python3.14/scitbx/array_family/tst_af_2 debian/python3-cctbx/usr/lib/cctbx/python3.14/scitbx/array_family/tst_af_3 debian/python3-cctbx/usr/lib/cctbx/python3.14/scitbx/array_family/tst_af_4 debian/python3-cctbx/usr/lib/cctbx/python3.14/scitbx/array_family/tst_af_5 debian/python3-cctbx/usr/lib/cctbx/python3.14/scitbx/array_family/tst_mat3 debian/python3-cctbx/usr/lib/cctbx/python3.14/scitbx/array_family/tst_optional_copy debian/python3-cctbx/usr/lib/cctbx/python3.14/scitbx/array_family/tst_rectangular_full_packed debian/python3-cctbx/usr/lib/cctbx/python3.14/scitbx/array_family/tst_ref_matrix_facet debian/python3-cctbx/usr/lib/cctbx/python3.14/scitbx/array_family/tst_sym_mat3 debian/python3-cctbx/usr/lib/cctbx/python3.14/scitbx/array_family/tst_unsigned_float_arithmetic debian/python3-cctbx/usr/lib/cctbx/python3.14/scitbx/array_family/tst_vec3 debian/python3-cctbx/usr/lib/cctbx/python3.14/scitbx/error/tst_error debian/python3-cctbx/usr/lib/cctbx/python3.14/scitbx/lbfgs/tst_lbfgs debian/python3-cctbx/usr/lib/cctbx/python3.14/scitbx/math/tests/tst debian/python3-cctbx/usr/lib/cctbx/python3.14/scitbx/matrix/tests/tst_cholesky debian/python3-cctbx/usr/lib/cctbx/python3.14/scitbx/matrix/tests/tst_givens debian/python3-cctbx/usr/lib/cctbx/python3.14/scitbx/matrix/tests/tst_householder debian/python3-cctbx/usr/lib/cctbx/python3.14/scitbx/matrix/tests/tst_svd debian/python3-cctbx/usr/lib/cctbx/python3.14/scitbx/serialization/tst_base_256 debian/python3-cctbx/usr/lib/cctbx/python3.14/smtbx/refinement/constraints/tests/tst_geometrical_hydrogens debian/python3-cctbx/usr/lib/cctbx/python3.14/smtbx/refinement/constraints/tests/tst_reparametrisation debian/python3-cctbx/usr/lib/cctbx/python3.14/smtbx/refinement/constraints/tests/tst_special_position debian/python3-cctbx/usr/lib/python3/dist-packages/annlib_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/annlib_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_boost_thread_test_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_boost_thread_test_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_breadth_first_search_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_breadth_first_search_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_clustering_algorithm_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_clustering_algorithm_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_connected_component_algorithm_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_connected_component_algorithm_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_graph_structure_comparison_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_graph_structure_comparison_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_maximum_clique_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_maximum_clique_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_metric_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_metric_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_min_cut_max_flow_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_min_cut_max_flow_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_utility_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_utility_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_python_streambuf_test_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_python_streambuf_test_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_optional_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_optional_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_python_hybrid_times_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_python_hybrid_times_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_python_meta_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_python_meta_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_rational_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_rational_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_tuple_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_tuple_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cbflib_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cbflib_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/ccp4io_adaptbx_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/ccp4io_adaptbx_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_adp_restraints_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_adp_restraints_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_adptbx_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_adptbx_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_anharmonic_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_anharmonic_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_array_family_flex_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_array_family_flex_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_asymmetric_map_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_asymmetric_map_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_covariance_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_covariance_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_crystal_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_crystal_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_dmtbx_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_dmtbx_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_attenuation_coefficient_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_attenuation_coefficient_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_chemical_elements_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_chemical_elements_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_covalent_radii_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_covalent_radii_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_fp_fdp_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_fp_fdp_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_henke_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_henke_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_icsd_radii_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_icsd_radii_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_neutron_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_neutron_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_sasaki_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_sasaki_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_tiny_pse_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_tiny_pse_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_wavelengths_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_wavelengths_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_xray_scattering_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_xray_scattering_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_emma_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_emma_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_french_wilson_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_french_wilson_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_geometry_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_geometry_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_geometry_restraints_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_geometry_restraints_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_maptbx_bcr_bcr_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_maptbx_bcr_bcr_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_maptbx_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_maptbx_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_masks_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_masks_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_math_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_math_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_merging_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_merging_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_miller_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_miller_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_multipolar_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_multipolar_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_orientation_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_orientation_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_sgtbx_asu_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_sgtbx_asu_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_sgtbx_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_sgtbx_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_statistics_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_statistics_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_symmetry_search_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_symmetry_search_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_translation_search_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_translation_search_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_uctbx_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_uctbx_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_xray_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_xray_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_xray_observations_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_xray_observations_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cma_es_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cma_es_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/determine_unit_cell_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/determine_unit_cell_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_flumpy.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_flumpy.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_format_image_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_format_image_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_format_nexus_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_format_nexus_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_imageset_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_imageset_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_masking_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_masking_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_model_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_model_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/fable_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/fable_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_fonts_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_fonts_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_gl_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_gl_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_glu_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_glu_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_quadrics_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_quadrics_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_util_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_util_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_viewer_utils_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_viewer_utils_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_ccp4_map_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_ccp4_map_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_cif_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_cif_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_detectors_bruker_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_detectors_bruker_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_detectors_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_detectors_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dsn6_map_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dsn6_map_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dtrek_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dtrek_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_mtz_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_mtz_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_hierarchy_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_hierarchy_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_scalepack_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_scalepack_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_shelx_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_shelx_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_wildcard_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_wildcard_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_xplor_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_xplor_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_alignment_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_alignment_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_building_loop_closure_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_building_loop_closure_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_bulk_solvent_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_bulk_solvent_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_den_restraints_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_den_restraints_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_dssp_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_dssp_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_dynamics_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_dynamics_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_f_model_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_f_model_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_asa_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_asa_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_clash_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_clash_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_indexing_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_indexing_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_primitive_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_primitive_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_shared_types_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_shared_types_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_sphere_surface_sampling_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_sphere_surface_sampling_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_hydrogens_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_hydrogens_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_masks_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_masks_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_max_lik_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_max_lik_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_mosaic_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_mosaic_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ncs_cartesian_restraints_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ncs_cartesian_restraints_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ncs_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ncs_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_pair_interaction_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_pair_interaction_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_probe_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_probe_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ramachandran_restraints_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ramachandran_restraints_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reduce_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reduce_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reference_coordinate_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reference_coordinate_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_rotamer_fit_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_rotamer_fit_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_rsr_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_rsr_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_scaling_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_scaling_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_secondary_structure_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_secondary_structure_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_decompose_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_decompose_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_optimise_amplitudes_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_optimise_amplitudes_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_utils_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_utils_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_utils_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_utils_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_validation_ramachandran_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_validation_ramachandran_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/omptbx_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/omptbx_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/regression_test_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/regression_test_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_array_family_flex_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_array_family_flex_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bandpass_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bandpass_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bpcx_detector_model_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bpcx_detector_model_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_diffraction_fastbragg_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_diffraction_fastbragg_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_indexing_api_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_indexing_api_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_integration_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_integration_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simage_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simage_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simulation_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simulation_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_symmetry_constraints_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_symmetry_constraints_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_array_family_flex_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_array_family_flex_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_array_family_shared_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_array_family_shared_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_cubicle_neighbors_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_cubicle_neighbors_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_fftpack_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_fftpack_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_glmtbx_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_glmtbx_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_graphics_utils_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_graphics_utils_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_iso_surface_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_iso_surface_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lbfgs_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lbfgs_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lbfgsb_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lbfgsb_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_linalg_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_linalg_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lstbx_normal_equations_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lstbx_normal_equations_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_math_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_math_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_minpack_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_minpack_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_r3_utils_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_r3_utils_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_random_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_random_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_rigid_body_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_rigid_body_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_sparse_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_sparse_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_map_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_map_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_set_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_set_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_vector_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_vector_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_suffixtree_shared_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_suffixtree_shared_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_suffixtree_single_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_suffixtree_single_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_wigner_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_wigner_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_ab_initio_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_ab_initio_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_array_family_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_array_family_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_constraints_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_constraints_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_least_squares_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_least_squares_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_restraints_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_restraints_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_stl_map_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_stl_map_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_structure_factors_direct_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_structure_factors_direct_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_array_family_flex_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_array_family_flex_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_distltbx_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_distltbx_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_dxtbx_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_dxtbx_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_hough_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_hough_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/std_pair_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/std_pair_ext.cpython-314-x86_64-linux-gnu.so objcopy --compress-debug-sections debian/libcctbx0/usr/lib/debug/.dwz/x86_64-linux-gnu/libcctbx0.debug chmod 0644 -- debian/libcctbx0/usr/lib/debug/.dwz/x86_64-linux-gnu/libcctbx0.debug objcopy --compress-debug-sections debian/python3-cctbx/usr/lib/debug/.dwz/x86_64-linux-gnu/python3-cctbx.debug chmod 0644 -- debian/python3-cctbx/usr/lib/debug/.dwz/x86_64-linux-gnu/python3-cctbx.debug dh_strip -a -O--buildsystem=pybuild install -m0755 -d debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/dc objcopy --only-keep-debug --compress-debug-sections debian/libcctbx0/usr/lib/x86_64-linux-gnu/libccp4io.so.0.0.1 debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/dc/c53ccfb12c5504257e1108dbe244a6a8efe606.debug chmod 0644 -- debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/dc/c53ccfb12c5504257e1108dbe244a6a8efe606.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libcctbx0/usr/lib/x86_64-linux-gnu/libccp4io.so.0.0.1 objcopy --add-gnu-debuglink debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/dc/c53ccfb12c5504257e1108dbe244a6a8efe606.debug debian/libcctbx0/usr/lib/x86_64-linux-gnu/libccp4io.so.0.0.1 install -m0755 -d debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/d3 objcopy --only-keep-debug --compress-debug-sections debian/libcctbx0/usr/lib/x86_64-linux-gnu/libomptbx.so.0.0.1 debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/d3/5fa913a165a4b47bc42414795d7fcc71b85e5c.debug chmod 0644 -- debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/d3/5fa913a165a4b47bc42414795d7fcc71b85e5c.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libcctbx0/usr/lib/x86_64-linux-gnu/libomptbx.so.0.0.1 objcopy --add-gnu-debuglink debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/d3/5fa913a165a4b47bc42414795d7fcc71b85e5c.debug debian/libcctbx0/usr/lib/x86_64-linux-gnu/libomptbx.so.0.0.1 install -m0755 -d debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/ce objcopy --only-keep-debug --compress-debug-sections debian/libcctbx0/usr/lib/x86_64-linux-gnu/librstbx.so.0.0.1 debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/ce/a34231aa75f64697eb2ad5239dcef0576a7699.debug chmod 0644 -- debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/ce/a34231aa75f64697eb2ad5239dcef0576a7699.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libcctbx0/usr/lib/x86_64-linux-gnu/librstbx.so.0.0.1 objcopy --add-gnu-debuglink debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/ce/a34231aa75f64697eb2ad5239dcef0576a7699.debug debian/libcctbx0/usr/lib/x86_64-linux-gnu/librstbx.so.0.0.1 install -m0755 -d debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/93 objcopy --only-keep-debug --compress-debug-sections debian/libcctbx0/usr/lib/x86_64-linux-gnu/libiotbx_mtz.so.0.0.1 debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/93/4a3c37bb5c1f0cb14820215259b18a681aa6ba.debug install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c6 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_restraints_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c6/b8a60deecec773debb418f5b5d4df59ec7c44a.debug chmod 0644 -- debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/93/4a3c37bb5c1f0cb14820215259b18a681aa6ba.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libcctbx0/usr/lib/x86_64-linux-gnu/libiotbx_mtz.so.0.0.1 objcopy --add-gnu-debuglink debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/93/4a3c37bb5c1f0cb14820215259b18a681aa6ba.debug debian/libcctbx0/usr/lib/x86_64-linux-gnu/libiotbx_mtz.so.0.0.1 install -m0755 -d debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/36 objcopy --only-keep-debug --compress-debug-sections debian/libcctbx0/usr/lib/x86_64-linux-gnu/libcctbx_sgtbx_asu.so.0.0.1 debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/36/fbb258d8a77ae80432af30f417a4d025f39f1c.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c6/b8a60deecec773debb418f5b5d4df59ec7c44a.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_restraints_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c6/b8a60deecec773debb418f5b5d4df59ec7c44a.debug debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_restraints_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/27 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_neutron_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/27/d4380cc7a141db315687ae185f9e261c124129.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/27/d4380cc7a141db315687ae185f9e261c124129.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_neutron_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/27/d4380cc7a141db315687ae185f9e261c124129.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_neutron_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/71 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_array_family_flex_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/71/0c9c81117ce2aa50ac017bd2d03f4f150dc468.debug chmod 0644 -- debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/36/fbb258d8a77ae80432af30f417a4d025f39f1c.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libcctbx0/usr/lib/x86_64-linux-gnu/libcctbx_sgtbx_asu.so.0.0.1 objcopy --add-gnu-debuglink debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/36/fbb258d8a77ae80432af30f417a4d025f39f1c.debug debian/libcctbx0/usr/lib/x86_64-linux-gnu/libcctbx_sgtbx_asu.so.0.0.1 install -m0755 -d debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/3d objcopy --only-keep-debug --compress-debug-sections debian/libcctbx0/usr/lib/x86_64-linux-gnu/libscitbx_boost_python.so.0.0.1 debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/3d/98530f8862b061037100071735baf6a71478bc.debug chmod 0644 -- debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/3d/98530f8862b061037100071735baf6a71478bc.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libcctbx0/usr/lib/x86_64-linux-gnu/libscitbx_boost_python.so.0.0.1 objcopy --add-gnu-debuglink debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/3d/98530f8862b061037100071735baf6a71478bc.debug debian/libcctbx0/usr/lib/x86_64-linux-gnu/libscitbx_boost_python.so.0.0.1 install -m0755 -d debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/c5 objcopy --only-keep-debug --compress-debug-sections debian/libcctbx0/usr/lib/x86_64-linux-gnu/libsmtbx_refinement_constraints.so.0.0.1 debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/c5/8ee244c5ddbc4e6c46dd58d1400a9c3e079cc7.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/71/0c9c81117ce2aa50ac017bd2d03f4f150dc468.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_array_family_flex_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/71/0c9c81117ce2aa50ac017bd2d03f4f150dc468.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_array_family_flex_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/37 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_geometry_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/37/849e33386730c98b34f7d7db2cb9eb369851e2.debug chmod 0644 -- debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/c5/8ee244c5ddbc4e6c46dd58d1400a9c3e079cc7.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libcctbx0/usr/lib/x86_64-linux-gnu/libsmtbx_refinement_constraints.so.0.0.1 objcopy --add-gnu-debuglink debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/c5/8ee244c5ddbc4e6c46dd58d1400a9c3e079cc7.debug debian/libcctbx0/usr/lib/x86_64-linux-gnu/libsmtbx_refinement_constraints.so.0.0.1 install -m0755 -d debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/2b objcopy --only-keep-debug --compress-debug-sections debian/libcctbx0/usr/lib/x86_64-linux-gnu/libmmtbx_masks.so.0.0.1 debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/2b/82adb6dd72220670992c6c5de7140c1279ae25.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/37/849e33386730c98b34f7d7db2cb9eb369851e2.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_geometry_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/37/849e33386730c98b34f7d7db2cb9eb369851e2.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_geometry_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/dd objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_suffixtree_shared_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/dd/1be3065c7dca3b247680b26e71b4e91379e167.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/dd/1be3065c7dca3b247680b26e71b4e91379e167.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_suffixtree_shared_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/dd/1be3065c7dca3b247680b26e71b4e91379e167.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_suffixtree_shared_ext.cpython-314-x86_64-linux-gnu.so chmod 0644 -- debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/2b/82adb6dd72220670992c6c5de7140c1279ae25.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libcctbx0/usr/lib/x86_64-linux-gnu/libmmtbx_masks.so.0.0.1 install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/32 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_imageset_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/32/a95406244c1a0614324ffdc9b5dba7f4d68af4.debug objcopy --add-gnu-debuglink debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/2b/82adb6dd72220670992c6c5de7140c1279ae25.debug debian/libcctbx0/usr/lib/x86_64-linux-gnu/libmmtbx_masks.so.0.0.1 install -m0755 -d debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/cb objcopy --only-keep-debug --compress-debug-sections debian/libcctbx0/usr/lib/x86_64-linux-gnu/libspotfinder.so.0.0.1 debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/cb/220e0972ed8f0f92dda5bcf1ed8e0849002787.debug chmod 0644 -- debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/cb/220e0972ed8f0f92dda5bcf1ed8e0849002787.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libcctbx0/usr/lib/x86_64-linux-gnu/libspotfinder.so.0.0.1 objcopy --add-gnu-debuglink debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/cb/220e0972ed8f0f92dda5bcf1ed8e0849002787.debug debian/libcctbx0/usr/lib/x86_64-linux-gnu/libspotfinder.so.0.0.1 install -m0755 -d debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/3b objcopy --only-keep-debug --compress-debug-sections debian/libcctbx0/usr/lib/x86_64-linux-gnu/libdxtbxspotfinder.so.0.0.1 debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/3b/87da4c24e4e3b619ed044875ce9e84371428be.debug chmod 0644 -- debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/3b/87da4c24e4e3b619ed044875ce9e84371428be.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libcctbx0/usr/lib/x86_64-linux-gnu/libdxtbxspotfinder.so.0.0.1 objcopy --add-gnu-debuglink debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/3b/87da4c24e4e3b619ed044875ce9e84371428be.debug debian/libcctbx0/usr/lib/x86_64-linux-gnu/libdxtbxspotfinder.so.0.0.1 install -m0755 -d debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/c1 objcopy --only-keep-debug --compress-debug-sections debian/libcctbx0/usr/lib/x86_64-linux-gnu/libasymmetric_map.so.0.0.1 debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/c1/02a804649da9bb24a4d66e0c7e8f56848fece7.debug chmod 0644 -- debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/c1/02a804649da9bb24a4d66e0c7e8f56848fece7.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libcctbx0/usr/lib/x86_64-linux-gnu/libasymmetric_map.so.0.0.1 objcopy --add-gnu-debuglink debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/c1/02a804649da9bb24a4d66e0c7e8f56848fece7.debug debian/libcctbx0/usr/lib/x86_64-linux-gnu/libasymmetric_map.so.0.0.1 install -m0755 -d debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/53 objcopy --only-keep-debug --compress-debug-sections debian/libcctbx0/usr/lib/x86_64-linux-gnu/libcbf-private.so.0.0.1 debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/53/0fc7b15e66391145ef991a7a3fe5ff199a1c51.debug chmod 0644 -- debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/53/0fc7b15e66391145ef991a7a3fe5ff199a1c51.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libcctbx0/usr/lib/x86_64-linux-gnu/libcbf-private.so.0.0.1 objcopy --add-gnu-debuglink debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/53/0fc7b15e66391145ef991a7a3fe5ff199a1c51.debug debian/libcctbx0/usr/lib/x86_64-linux-gnu/libcbf-private.so.0.0.1 install -m0755 -d debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/80 objcopy --only-keep-debug --compress-debug-sections debian/libcctbx0/usr/lib/x86_64-linux-gnu/libiotbx_pdb.so.0.0.1 debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/80/dca15bd0b6d2ade7b2f427669d978869d49da1.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/32/a95406244c1a0614324ffdc9b5dba7f4d68af4.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_imageset_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/32/a95406244c1a0614324ffdc9b5dba7f4d68af4.debug debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_imageset_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d5 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_metric_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d5/dd194b3ca474c3f815afc8e38223d39dbf0ddd.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d5/dd194b3ca474c3f815afc8e38223d39dbf0ddd.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_metric_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d5/dd194b3ca474c3f815afc8e38223d39dbf0ddd.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_metric_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a3 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_scalepack_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a3/8d87950d3965709436af23790cf3f557ac6e7c.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a3/8d87950d3965709436af23790cf3f557ac6e7c.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_scalepack_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a3/8d87950d3965709436af23790cf3f557ac6e7c.debug debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_scalepack_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d0 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/omptbx_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d0/ffaea00c4a368e82ef316738be1ceca8a0133e.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d0/ffaea00c4a368e82ef316738be1ceca8a0133e.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/omptbx_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d0/ffaea00c4a368e82ef316738be1ceca8a0133e.debug debian/python3-cctbx/usr/lib/python3/dist-packages/omptbx_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/90 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_masking_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/90/643976832fa776294547deb788912841914070.debug chmod 0644 -- debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/80/dca15bd0b6d2ade7b2f427669d978869d49da1.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libcctbx0/usr/lib/x86_64-linux-gnu/libiotbx_pdb.so.0.0.1 objcopy --add-gnu-debuglink debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/80/dca15bd0b6d2ade7b2f427669d978869d49da1.debug debian/libcctbx0/usr/lib/x86_64-linux-gnu/libiotbx_pdb.so.0.0.1 install -m0755 -d debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/88 objcopy --only-keep-debug --compress-debug-sections debian/libcctbx0/usr/lib/x86_64-linux-gnu/libcctbx.so.0.0.1 debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/88/2fa0620972963457cd741ed6fb4bb7177ad421.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/90/643976832fa776294547deb788912841914070.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_masking_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/90/643976832fa776294547deb788912841914070.debug debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_masking_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d5 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_breadth_first_search_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d5/b507bbc50ec694be6f2aa751bba60a05cd11d6.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d5/b507bbc50ec694be6f2aa751bba60a05cd11d6.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_breadth_first_search_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d5/b507bbc50ec694be6f2aa751bba60a05cd11d6.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_breadth_first_search_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/29 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_util_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/29/b3d237bbf0749692cad8b8eb4a3fb198b23bcb.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/29/b3d237bbf0749692cad8b8eb4a3fb198b23bcb.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_util_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/29/b3d237bbf0749692cad8b8eb4a3fb198b23bcb.debug debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_util_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/32 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_tuple_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/32/8e68fc3e80e640b9af205dceaec3f6323a7902.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/32/8e68fc3e80e640b9af205dceaec3f6323a7902.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_tuple_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/32/8e68fc3e80e640b9af205dceaec3f6323a7902.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_tuple_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/46 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_dxtbx_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/46/b11cd8034f1d1ace1a567b586e00f7f58b72ca.debug chmod 0644 -- debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/88/2fa0620972963457cd741ed6fb4bb7177ad421.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libcctbx0/usr/lib/x86_64-linux-gnu/libcctbx.so.0.0.1 objcopy --add-gnu-debuglink debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/88/2fa0620972963457cd741ed6fb4bb7177ad421.debug debian/libcctbx0/usr/lib/x86_64-linux-gnu/libcctbx.so.0.0.1 chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/46/b11cd8034f1d1ace1a567b586e00f7f58b72ca.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_dxtbx_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/46/b11cd8034f1d1ace1a567b586e00f7f58b72ca.debug debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_dxtbx_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/7c objcopy --only-keep-debug --compress-debug-sections debian/libcctbx0/usr/lib/x86_64-linux-gnu/libann_adaptor.so.0.0.1 debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/7c/a0bd25451ba48fb597a5f8d8151125aa887a59.debug install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9d objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_python_meta_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9d/db7d3490fc262feb2cdea79691cd4d15675f61.debug chmod 0644 -- debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/7c/a0bd25451ba48fb597a5f8d8151125aa887a59.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libcctbx0/usr/lib/x86_64-linux-gnu/libann_adaptor.so.0.0.1 objcopy --add-gnu-debuglink debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/7c/a0bd25451ba48fb597a5f8d8151125aa887a59.debug debian/libcctbx0/usr/lib/x86_64-linux-gnu/libann_adaptor.so.0.0.1 install -m0755 -d debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/63 objcopy --only-keep-debug --compress-debug-sections debian/libcctbx0/usr/lib/x86_64-linux-gnu/libmmtbx_tls.so.0.0.1 debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/63/048f1527f08fa0cf2c36275e7d3c475fe68bfe.debug chmod 0644 -- debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/63/048f1527f08fa0cf2c36275e7d3c475fe68bfe.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libcctbx0/usr/lib/x86_64-linux-gnu/libmmtbx_tls.so.0.0.1 objcopy --add-gnu-debuglink debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/63/048f1527f08fa0cf2c36275e7d3c475fe68bfe.debug debian/libcctbx0/usr/lib/x86_64-linux-gnu/libmmtbx_tls.so.0.0.1 chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9d/db7d3490fc262feb2cdea79691cd4d15675f61.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_python_meta_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9d/db7d3490fc262feb2cdea79691cd4d15675f61.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_python_meta_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/36 objcopy --only-keep-debug --compress-debug-sections debian/libcctbx0/usr/lib/x86_64-linux-gnu/libiotbx_xplor.so.0.0.1 debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/36/86265389a706435b1c99311ceacdc8bc968b9c.debug install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ef objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_henke_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ef/af0345da682171774e3d711297f4a90cd6d0d1.debug chmod 0644 -- debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/36/86265389a706435b1c99311ceacdc8bc968b9c.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libcctbx0/usr/lib/x86_64-linux-gnu/libiotbx_xplor.so.0.0.1 objcopy --add-gnu-debuglink debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/36/86265389a706435b1c99311ceacdc8bc968b9c.debug debian/libcctbx0/usr/lib/x86_64-linux-gnu/libiotbx_xplor.so.0.0.1 chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ef/af0345da682171774e3d711297f4a90cd6d0d1.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_henke_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/b4 objcopy --only-keep-debug --compress-debug-sections debian/libcctbx0/usr/lib/x86_64-linux-gnu/libscitbx_minpack.so.0.0.1 debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/b4/2c355a36f79b7952db5692a4fbc4de1ab5b1e7.debug objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ef/af0345da682171774e3d711297f4a90cd6d0d1.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_henke_ext.cpython-314-x86_64-linux-gnu.so chmod 0644 -- debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/b4/2c355a36f79b7952db5692a4fbc4de1ab5b1e7.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libcctbx0/usr/lib/x86_64-linux-gnu/libscitbx_minpack.so.0.0.1 install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f8 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dtrek_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f8/ea66b5254910287e59e3928df42330f75e3c5d.debug objcopy --add-gnu-debuglink debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/b4/2c355a36f79b7952db5692a4fbc4de1ab5b1e7.debug debian/libcctbx0/usr/lib/x86_64-linux-gnu/libscitbx_minpack.so.0.0.1 install -m0755 -d debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/5c objcopy --only-keep-debug --compress-debug-sections debian/libcctbx0/usr/lib/x86_64-linux-gnu/libscitbx_slatec.so.0.0.1 debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/5c/3ab8b916ce7e0e99ca35a49b94cb0cd59036a9.debug chmod 0644 -- debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/5c/3ab8b916ce7e0e99ca35a49b94cb0cd59036a9.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libcctbx0/usr/lib/x86_64-linux-gnu/libscitbx_slatec.so.0.0.1 objcopy --add-gnu-debuglink debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/5c/3ab8b916ce7e0e99ca35a49b94cb0cd59036a9.debug debian/libcctbx0/usr/lib/x86_64-linux-gnu/libscitbx_slatec.so.0.0.1 install -m0755 -d debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.dwz cp --reflink=auto -a debian/libcctbx0/usr/lib/debug/.dwz/x86_64-linux-gnu debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.dwz chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f8/ea66b5254910287e59e3928df42330f75e3c5d.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dtrek_ext.cpython-314-x86_64-linux-gnu.so rm -fr debian/libcctbx0/usr/lib/debug/.dwz rmdir -p --ignore-fail-on-non-empty debian/libcctbx0/usr/lib/debug objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f8/ea66b5254910287e59e3928df42330f75e3c5d.debug debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dtrek_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/libcctbx0/dbgsym-root/usr/share/doc ln -s libcctbx0 debian/.debhelper/libcctbx0/dbgsym-root/usr/share/doc/libcctbx0-dbgsym install -m0755 -d debian/.debhelper/libcctbx0 install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ea objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_graph_structure_comparison_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ea/644ae7177fdc4e047d4eee79e367a13440e00d.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ea/644ae7177fdc4e047d4eee79e367a13440e00d.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_graph_structure_comparison_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ea/644ae7177fdc4e047d4eee79e367a13440e00d.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_graph_structure_comparison_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f2 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_diffraction_fastbragg_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f2/547acceca465f3302011841bbf83114a8dbeb6.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f2/547acceca465f3302011841bbf83114a8dbeb6.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_diffraction_fastbragg_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f2/547acceca465f3302011841bbf83114a8dbeb6.debug debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_diffraction_fastbragg_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d6 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_symmetry_search_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d6/43a105e2c472f94964ac24790224ddd389c797.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d6/43a105e2c472f94964ac24790224ddd389c797.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_symmetry_search_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d6/43a105e2c472f94964ac24790224ddd389c797.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_symmetry_search_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b2 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ramachandran_restraints_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b2/63ea440526b812aea848b7944f4d09c0ab9ab6.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b2/63ea440526b812aea848b7944f4d09c0ab9ab6.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ramachandran_restraints_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b2/63ea440526b812aea848b7944f4d09c0ab9ab6.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ramachandran_restraints_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b5 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/determine_unit_cell_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b5/597f95254c806f8fa9962367a774048ac01d47.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b5/597f95254c806f8fa9962367a774048ac01d47.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/determine_unit_cell_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b5/597f95254c806f8fa9962367a774048ac01d47.debug debian/python3-cctbx/usr/lib/python3/dist-packages/determine_unit_cell_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/54 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_array_family_shared_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/54/8f19c8f7b50bd0d04c9b649873208c5630b748.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/54/8f19c8f7b50bd0d04c9b649873208c5630b748.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_array_family_shared_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/54/8f19c8f7b50bd0d04c9b649873208c5630b748.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_array_family_shared_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e1 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_shared_types_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e1/024e94e810132cf70cb91f3cc091a1176e1bc9.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e1/024e94e810132cf70cb91f3cc091a1176e1bc9.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_shared_types_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e1/024e94e810132cf70cb91f3cc091a1176e1bc9.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_shared_types_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/93 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_iso_surface_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/93/9ebced99b8c64f946ec2ba244f158d738240a2.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/93/9ebced99b8c64f946ec2ba244f158d738240a2.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_iso_surface_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/93/9ebced99b8c64f946ec2ba244f158d738240a2.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_iso_surface_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ea objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lstbx_normal_equations_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ea/737b3509eba9bff0d7ea717e6690db28aec032.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ea/737b3509eba9bff0d7ea717e6690db28aec032.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lstbx_normal_equations_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ea/737b3509eba9bff0d7ea717e6690db28aec032.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lstbx_normal_equations_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/58 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_hierarchy_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/58/d7ce1602f49dae4fcc78751d812f0de301c9eb.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/58/d7ce1602f49dae4fcc78751d812f0de301c9eb.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_hierarchy_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/58/d7ce1602f49dae4fcc78751d812f0de301c9eb.debug debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_hierarchy_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ea objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_den_restraints_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ea/b075c95d61a5b51309cd6ad30faec78c6e74ac.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ea/b075c95d61a5b51309cd6ad30faec78c6e74ac.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_den_restraints_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ea/b075c95d61a5b51309cd6ad30faec78c6e74ac.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_den_restraints_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/70 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ncs_cartesian_restraints_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/70/a1d5ae71fcb2d588f4d59199467b4e47f32d7c.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/70/a1d5ae71fcb2d588f4d59199467b4e47f32d7c.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ncs_cartesian_restraints_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/70/a1d5ae71fcb2d588f4d59199467b4e47f32d7c.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ncs_cartesian_restraints_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/50 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_scaling_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/50/0c1cc822baeb364b894fa7b96f4a522ab95d13.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/50/0c1cc822baeb364b894fa7b96f4a522ab95d13.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_scaling_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/50/0c1cc822baeb364b894fa7b96f4a522ab95d13.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_scaling_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4e objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_detectors_bruker_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4e/db061cefdd571912137457deac13b42ac27972.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4e/db061cefdd571912137457deac13b42ac27972.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_detectors_bruker_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4e/db061cefdd571912137457deac13b42ac27972.debug debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_detectors_bruker_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/da objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_covariance_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/da/b7e0f0a3417eb55289a502e4aa185d3a0af94d.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/da/b7e0f0a3417eb55289a502e4aa185d3a0af94d.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_covariance_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/da/b7e0f0a3417eb55289a502e4aa185d3a0af94d.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_covariance_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a6 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/fable_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a6/aa648db2aeaaee73ee51553bbef4b58be59c1e.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a6/aa648db2aeaaee73ee51553bbef4b58be59c1e.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/fable_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a6/aa648db2aeaaee73ee51553bbef4b58be59c1e.debug debian/python3-cctbx/usr/lib/python3/dist-packages/fable_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/30 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_python_meta_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/30/8909f1e11ca1bafad0a5296c024ea628c650c0.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/30/8909f1e11ca1bafad0a5296c024ea628c650c0.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_python_meta_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/30/8909f1e11ca1bafad0a5296c024ea628c650c0.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_python_meta_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/41 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dsn6_map_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/41/10eb2c79087435cb24079f30f134882d7b5108.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/41/10eb2c79087435cb24079f30f134882d7b5108.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dsn6_map_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/41/10eb2c79087435cb24079f30f134882d7b5108.debug debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dsn6_map_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/aa objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_ab_initio_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/aa/828cdba946012ef509c57cdaccd5b429acd734.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/aa/828cdba946012ef509c57cdaccd5b429acd734.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_ab_initio_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/aa/828cdba946012ef509c57cdaccd5b429acd734.debug debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_ab_initio_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/18 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ncs_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/18/189cf85d81e12317847b4f6db8bf331cdcce6a.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/18/189cf85d81e12317847b4f6db8bf331cdcce6a.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ncs_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/18/189cf85d81e12317847b4f6db8bf331cdcce6a.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ncs_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/29 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_henke_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/29/8cabf26839a6bec000e827df321e3c243d6adf.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/29/8cabf26839a6bec000e827df321e3c243d6adf.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_henke_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/29/8cabf26839a6bec000e827df321e3c243d6adf.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_henke_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/80 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_math_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/80/a21d0ee5195ad201e3ffb15192d53ac834d8f7.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/80/a21d0ee5195ad201e3ffb15192d53ac834d8f7.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_math_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/80/a21d0ee5195ad201e3ffb15192d53ac834d8f7.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_math_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5f objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_french_wilson_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5f/943d8b0e9bc943414b5d24909248ef29426123.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5f/943d8b0e9bc943414b5d24909248ef29426123.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_french_wilson_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5f/943d8b0e9bc943414b5d24909248ef29426123.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_french_wilson_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/95 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_xplor_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/95/f0420c82aa1fe75d7a1e6214868a8778c9ed02.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/95/f0420c82aa1fe75d7a1e6214868a8778c9ed02.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_xplor_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/95/f0420c82aa1fe75d7a1e6214868a8778c9ed02.debug debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_xplor_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9c objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_chemical_elements_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9c/b621757c61e99e634ab5d5899c071e3d8129b9.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9c/b621757c61e99e634ab5d5899c071e3d8129b9.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_chemical_elements_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9c/b621757c61e99e634ab5d5899c071e3d8129b9.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_chemical_elements_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2e objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_symmetry_constraints_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2e/7b4d2c163a08010090d3295e1ac1f90d7975f1.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2e/7b4d2c163a08010090d3295e1ac1f90d7975f1.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_symmetry_constraints_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2e/7b4d2c163a08010090d3295e1ac1f90d7975f1.debug debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_symmetry_constraints_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e8 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/std_pair_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e8/a9c80ed251bd03f6e0d38c8b49e805f2f002f7.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e8/a9c80ed251bd03f6e0d38c8b49e805f2f002f7.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/std_pair_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e8/a9c80ed251bd03f6e0d38c8b49e805f2f002f7.debug debian/python3-cctbx/usr/lib/python3/dist-packages/std_pair_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f8 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bpcx_detector_model_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f8/d20b0e0bd06e4c321a802229fd873d54ab784d.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f8/d20b0e0bd06e4c321a802229fd873d54ab784d.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bpcx_detector_model_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f8/d20b0e0bd06e4c321a802229fd873d54ab784d.debug debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bpcx_detector_model_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/92 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_map_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/92/41ab426180b64ae589bf738a2470c438be6933.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/92/41ab426180b64ae589bf738a2470c438be6933.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_map_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/92/41ab426180b64ae589bf738a2470c438be6933.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_map_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/55 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_minpack_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/55/4822cefd136053174629c1eec2bae1737265bb.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/55/4822cefd136053174629c1eec2bae1737265bb.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_minpack_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/55/4822cefd136053174629c1eec2bae1737265bb.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_minpack_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d8 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_mosaic_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d8/5e50143a5cfc05e4e6fb6d56cb26fa43e3ed09.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d8/5e50143a5cfc05e4e6fb6d56cb26fa43e3ed09.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_mosaic_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d8/5e50143a5cfc05e4e6fb6d56cb26fa43e3ed09.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_mosaic_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/63 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_xray_observations_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/63/9338176a27972494d2a1669ab8a8804e5d3ea7.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/63/9338176a27972494d2a1669ab8a8804e5d3ea7.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_xray_observations_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/63/9338176a27972494d2a1669ab8a8804e5d3ea7.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_xray_observations_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/db objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_xplor_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/db/e3b95e113817b730d28adc8a4d5a8a49d2ed94.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/db/e3b95e113817b730d28adc8a4d5a8a49d2ed94.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_xplor_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/db/e3b95e113817b730d28adc8a4d5a8a49d2ed94.debug debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_xplor_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2b objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/annlib_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2b/401bedac4c3480ec7e7153539288f65afaf721.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2b/401bedac4c3480ec7e7153539288f65afaf721.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/annlib_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2b/401bedac4c3480ec7e7153539288f65afaf721.debug debian/python3-cctbx/usr/lib/python3/dist-packages/annlib_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/05 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_gl_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/05/7a19f31cba4402c2cbbb9fef0bc92d1bd7b9ff.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/05/7a19f31cba4402c2cbbb9fef0bc92d1bd7b9ff.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_gl_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/05/7a19f31cba4402c2cbbb9fef0bc92d1bd7b9ff.debug debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_gl_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/75 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_secondary_structure_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/75/957261bf536a4fca3ee33000e26b65ea24b482.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/75/957261bf536a4fca3ee33000e26b65ea24b482.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_secondary_structure_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/75/957261bf536a4fca3ee33000e26b65ea24b482.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_secondary_structure_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c1 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_symmetry_search_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c1/2931ce03da1ab757105b5fcd1101be114f3e44.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c1/2931ce03da1ab757105b5fcd1101be114f3e44.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_symmetry_search_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c1/2931ce03da1ab757105b5fcd1101be114f3e44.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_symmetry_search_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4f objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_statistics_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4f/1abb722933b5d514dbf65fefbac4ce856ae02f.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4f/1abb722933b5d514dbf65fefbac4ce856ae02f.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_statistics_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4f/1abb722933b5d514dbf65fefbac4ce856ae02f.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_statistics_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d2 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/determine_unit_cell_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d2/1cb26908e1811bdb90c92c03ea8a368c4f1db3.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d2/1cb26908e1811bdb90c92c03ea8a368c4f1db3.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/determine_unit_cell_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d2/1cb26908e1811bdb90c92c03ea8a368c4f1db3.debug debian/python3-cctbx/usr/lib/python3/dist-packages/determine_unit_cell_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/36 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_viewer_utils_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/36/f77adfab484ae67de32c503a58a25523509257.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/36/f77adfab484ae67de32c503a58a25523509257.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_viewer_utils_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/36/f77adfab484ae67de32c503a58a25523509257.debug debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_viewer_utils_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7c objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_rotamer_fit_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7c/4552949d307b23b4eedd66f0c3f46d9361ae46.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7c/4552949d307b23b4eedd66f0c3f46d9361ae46.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_rotamer_fit_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7c/4552949d307b23b4eedd66f0c3f46d9361ae46.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_rotamer_fit_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5b objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_den_restraints_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5b/41de25246848cdd227803751ec93dc6da854dd.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5b/41de25246848cdd227803751ec93dc6da854dd.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_den_restraints_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5b/41de25246848cdd227803751ec93dc6da854dd.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_den_restraints_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2f objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bandpass_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2f/e53e6bc582a3a4e4936f74d5e7fb5411065c94.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2f/e53e6bc582a3a4e4936f74d5e7fb5411065c94.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bandpass_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2f/e53e6bc582a3a4e4936f74d5e7fb5411065c94.debug debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bandpass_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ea objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_model_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ea/7287b509cf3eb7e246d4aa5624794259408ab5.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ea/7287b509cf3eb7e246d4aa5624794259408ab5.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_model_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ea/7287b509cf3eb7e246d4aa5624794259408ab5.debug debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_model_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ba objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_decompose_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ba/7ba815429084e9dfbaa99c79ead721b9e60b3d.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ba/7ba815429084e9dfbaa99c79ead721b9e60b3d.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_decompose_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ba/7ba815429084e9dfbaa99c79ead721b9e60b3d.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_decompose_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8f objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_constraints_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8f/1b24ae04e6f04c037147216b7173a106cdf0de.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8f/1b24ae04e6f04c037147216b7173a106cdf0de.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_constraints_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8f/1b24ae04e6f04c037147216b7173a106cdf0de.debug debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_constraints_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e1 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_chemical_elements_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e1/bce4f9096f073dbf61db1e6c469b679f740a16.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e1/bce4f9096f073dbf61db1e6c469b679f740a16.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_chemical_elements_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e1/bce4f9096f073dbf61db1e6c469b679f740a16.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_chemical_elements_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f7 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_covalent_radii_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f7/9ec1735197180f1bcc3113b087f9468c93b37d.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f7/9ec1735197180f1bcc3113b087f9468c93b37d.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_covalent_radii_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f7/9ec1735197180f1bcc3113b087f9468c93b37d.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_covalent_radii_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/26 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_dssp_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/26/d119e5452bc5abe17d643bd5a178f425e75728.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/26/d119e5452bc5abe17d643bd5a178f425e75728.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_dssp_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/26/d119e5452bc5abe17d643bd5a178f425e75728.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_dssp_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2e objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ncs_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2e/490e000b9724da8aaaee8c22717b232e47d6c0.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2e/490e000b9724da8aaaee8c22717b232e47d6c0.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ncs_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2e/490e000b9724da8aaaee8c22717b232e47d6c0.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ncs_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/67 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_multipolar_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/67/8dac71dcd0e2e85b1cc04e8a8e2d11cb71d1f3.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/67/8dac71dcd0e2e85b1cc04e8a8e2d11cb71d1f3.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_multipolar_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/67/8dac71dcd0e2e85b1cc04e8a8e2d11cb71d1f3.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_multipolar_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/77 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lbfgs_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/77/9e5ae118526302ce8900825c115d2470d66d1a.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/77/9e5ae118526302ce8900825c115d2470d66d1a.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lbfgs_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/77/9e5ae118526302ce8900825c115d2470d66d1a.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lbfgs_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ea objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_graphics_utils_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ea/5443f493c6350fd603153a5196a25c0d3e1b90.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ea/5443f493c6350fd603153a5196a25c0d3e1b90.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_graphics_utils_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ea/5443f493c6350fd603153a5196a25c0d3e1b90.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_graphics_utils_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/12 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_f_model_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/12/48fd0bc619044135daddee4d467b651f449686.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/12/48fd0bc619044135daddee4d467b651f449686.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_f_model_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/12/48fd0bc619044135daddee4d467b651f449686.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_f_model_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/98 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_constraints_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/98/a9586cd814f0fc30d49d3262206b9bde742876.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/98/a9586cd814f0fc30d49d3262206b9bde742876.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_constraints_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/98/a9586cd814f0fc30d49d3262206b9bde742876.debug debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_constraints_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/10 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_metric_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/10/3e36b305018e271e707808f76ed465d65297ed.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/10/3e36b305018e271e707808f76ed465d65297ed.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_metric_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/10/3e36b305018e271e707808f76ed465d65297ed.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_metric_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/46 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lbfgsb_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/46/73c397a46bd9fdf9730830036dd839fb412360.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/46/73c397a46bd9fdf9730830036dd839fb412360.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lbfgsb_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/46/73c397a46bd9fdf9730830036dd839fb412360.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lbfgsb_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/64 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_set_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/64/839d8355a40cfaa7523b57ae14a55e77d60413.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/64/839d8355a40cfaa7523b57ae14a55e77d60413.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_set_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/64/839d8355a40cfaa7523b57ae14a55e77d60413.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_set_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1f objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_probe_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1f/86065dbfcb92ddc1faf6b5b9def1c530491118.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1f/86065dbfcb92ddc1faf6b5b9def1c530491118.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_probe_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1f/86065dbfcb92ddc1faf6b5b9def1c530491118.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_probe_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/76 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_adp_restraints_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/76/d185f80219fecb81d86c85106f0f74a164c9fa.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/76/d185f80219fecb81d86c85106f0f74a164c9fa.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_adp_restraints_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/76/d185f80219fecb81d86c85106f0f74a164c9fa.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_adp_restraints_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/23 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_distltbx_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/23/0db2034f57ebbdd15483dac3d171a295197f88.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/23/0db2034f57ebbdd15483dac3d171a295197f88.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_distltbx_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/23/0db2034f57ebbdd15483dac3d171a295197f88.debug debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_distltbx_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f9 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_r3_utils_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f9/6928a2a7655b66bebb3b32a9c28c18815f5e5d.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f9/6928a2a7655b66bebb3b32a9c28c18815f5e5d.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_r3_utils_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f9/6928a2a7655b66bebb3b32a9c28c18815f5e5d.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_r3_utils_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9d objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_fftpack_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9d/6c25d40bfed183cec012119de71e7d6b91f6ff.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9d/6c25d40bfed183cec012119de71e7d6b91f6ff.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_fftpack_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9d/6c25d40bfed183cec012119de71e7d6b91f6ff.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_fftpack_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f1 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_fftpack_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f1/cc1a0d4eb7c778912f80ab0a61057031476943.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f1/cc1a0d4eb7c778912f80ab0a61057031476943.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_fftpack_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f1/cc1a0d4eb7c778912f80ab0a61057031476943.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_fftpack_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/24 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_model_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/24/9f9c05d3fcb35ff8df034f1bb4a51114a21f18.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/24/9f9c05d3fcb35ff8df034f1bb4a51114a21f18.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_model_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/24/9f9c05d3fcb35ff8df034f1bb4a51114a21f18.debug debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_model_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1a objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_dynamics_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1a/60999bcbd810bfb36f96b4646cb521f9a1bb4b.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1a/60999bcbd810bfb36f96b4646cb521f9a1bb4b.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_dynamics_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1a/60999bcbd810bfb36f96b4646cb521f9a1bb4b.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_dynamics_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/81 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_graphics_utils_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/81/328ede93e3d2ce21625eae7d1dff8fafdc2d12.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/81/328ede93e3d2ce21625eae7d1dff8fafdc2d12.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_graphics_utils_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/81/328ede93e3d2ce21625eae7d1dff8fafdc2d12.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_graphics_utils_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ab objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_python_hybrid_times_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ab/824604f3d9941de1e20dfb024f830237e424cb.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ab/824604f3d9941de1e20dfb024f830237e424cb.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_python_hybrid_times_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ab/824604f3d9941de1e20dfb024f830237e424cb.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_python_hybrid_times_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/12 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_python_hybrid_times_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/12/761214957101fb5c79e8ec943d2dbcbf7e22ba.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/12/761214957101fb5c79e8ec943d2dbcbf7e22ba.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_python_hybrid_times_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/12/761214957101fb5c79e8ec943d2dbcbf7e22ba.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_python_hybrid_times_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/91 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_rsr_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/91/3678b5795c4176265f32cd7debdf95956db8cb.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/91/3678b5795c4176265f32cd7debdf95956db8cb.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_rsr_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/91/3678b5795c4176265f32cd7debdf95956db8cb.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_rsr_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ff objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ff/94af20714e6bc3407e0a2a86990403f777dc54.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ff/94af20714e6bc3407e0a2a86990403f777dc54.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ff/94af20714e6bc3407e0a2a86990403f777dc54.debug debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/83 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/83/472437190765c5b35b1535e84f770ec5920001.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/83/472437190765c5b35b1535e84f770ec5920001.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/83/472437190765c5b35b1535e84f770ec5920001.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8a objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_optional_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8a/d51b728646956245cf531dfc3eb25c7fdd1d36.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8a/d51b728646956245cf531dfc3eb25c7fdd1d36.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_optional_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8a/d51b728646956245cf531dfc3eb25c7fdd1d36.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_optional_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2b objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_orientation_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2b/a84ffb9c84b48d68c728c83696183b12485bef.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2b/a84ffb9c84b48d68c728c83696183b12485bef.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_orientation_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2b/a84ffb9c84b48d68c728c83696183b12485bef.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_orientation_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/61 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_maptbx_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/61/a30c80c5605d41f3e90b492628e049b906d749.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/61/a30c80c5605d41f3e90b492628e049b906d749.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_maptbx_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/61/a30c80c5605d41f3e90b492628e049b906d749.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_maptbx_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/cf objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_f_model_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/cf/959fbe3cb217d0616a757b0a83dbef042c8201.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/cf/959fbe3cb217d0616a757b0a83dbef042c8201.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_f_model_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/cf/959fbe3cb217d0616a757b0a83dbef042c8201.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_f_model_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fa objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_bulk_solvent_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fa/90df53333e2bfd7fb85c68b09c134b8f16f716.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fa/90df53333e2bfd7fb85c68b09c134b8f16f716.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_bulk_solvent_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fa/90df53333e2bfd7fb85c68b09c134b8f16f716.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_bulk_solvent_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/db objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_math_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/db/ae7f7e6404a10da168a1b828c325e24b1aec17.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/db/ae7f7e6404a10da168a1b828c325e24b1aec17.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_math_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/db/ae7f7e6404a10da168a1b828c325e24b1aec17.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_math_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c1 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_rsr_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c1/25af6f204e88fe62e756cf23ef460d4722d081.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c1/25af6f204e88fe62e756cf23ef460d4722d081.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_rsr_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c1/25af6f204e88fe62e756cf23ef460d4722d081.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_rsr_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/14 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_emma_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/14/be225bab982fb3b3bb1370003892048e192a6c.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/14/be225bab982fb3b3bb1370003892048e192a6c.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_emma_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/14/be225bab982fb3b3bb1370003892048e192a6c.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_emma_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/10 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_array_family_flex_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/10/7eda64e28c10ca7a036144964ef0c887ce061f.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/10/7eda64e28c10ca7a036144964ef0c887ce061f.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_array_family_flex_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/10/7eda64e28c10ca7a036144964ef0c887ce061f.debug debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_array_family_flex_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/01 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_masking_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/01/a6f0176f19e01eff1df57198cd1155962b884f.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/01/a6f0176f19e01eff1df57198cd1155962b884f.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_masking_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/01/a6f0176f19e01eff1df57198cd1155962b884f.debug debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_masking_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/30 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_detectors_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/30/b67ed9426af39395eeee188f2514ca9dc355b1.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/30/b67ed9426af39395eeee188f2514ca9dc355b1.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_detectors_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/30/b67ed9426af39395eeee188f2514ca9dc355b1.debug debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_detectors_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/71 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_minpack_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/71/70c23db073fae96477cc399886f2d0a8b63488.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/71/70c23db073fae96477cc399886f2d0a8b63488.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_minpack_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/71/70c23db073fae96477cc399886f2d0a8b63488.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_minpack_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/44 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_sphere_surface_sampling_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/44/f5b1478586dbe83c403051ba9ba2ddca02946a.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/44/f5b1478586dbe83c403051ba9ba2ddca02946a.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_sphere_surface_sampling_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/44/f5b1478586dbe83c403051ba9ba2ddca02946a.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_sphere_surface_sampling_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/13 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_array_family_shared_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/13/59d6cc0fcf118b9f15b2865e1f7552cd616568.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/13/59d6cc0fcf118b9f15b2865e1f7552cd616568.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_array_family_shared_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/13/59d6cc0fcf118b9f15b2865e1f7552cd616568.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_array_family_shared_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ce objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_breadth_first_search_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ce/829c447eff25552380042db4a4bb2638a9047e.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ce/829c447eff25552380042db4a4bb2638a9047e.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_breadth_first_search_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ce/829c447eff25552380042db4a4bb2638a9047e.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_breadth_first_search_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d7 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_crystal_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d7/ec7b42eed3c1779f1ff300003477cf38c84a5d.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d7/ec7b42eed3c1779f1ff300003477cf38c84a5d.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_crystal_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d7/ec7b42eed3c1779f1ff300003477cf38c84a5d.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_crystal_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e3 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_wavelengths_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e3/db603a30077f57cfee4ccd84ae46a2e7309301.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e3/db603a30077f57cfee4ccd84ae46a2e7309301.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_wavelengths_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e3/db603a30077f57cfee4ccd84ae46a2e7309301.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_wavelengths_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8a objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_wavelengths_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8a/79436bc1825c791a1288f18aa2abb8c9af174c.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8a/79436bc1825c791a1288f18aa2abb8c9af174c.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_wavelengths_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8a/79436bc1825c791a1288f18aa2abb8c9af174c.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_wavelengths_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/72 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_r3_utils_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/72/d194c69044dfa57828bdf923cfb0bc41bea81c.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/72/d194c69044dfa57828bdf923cfb0bc41bea81c.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_r3_utils_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/72/d194c69044dfa57828bdf923cfb0bc41bea81c.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_r3_utils_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a1 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_adp_restraints_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a1/c9730128a85dff5bec3dd7defaaf9062837102.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a1/c9730128a85dff5bec3dd7defaaf9062837102.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_adp_restraints_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a1/c9730128a85dff5bec3dd7defaaf9062837102.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_adp_restraints_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/de objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_uctbx_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/de/61e401870e3a57cbcc71c91104c130fe602c15.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/de/61e401870e3a57cbcc71c91104c130fe602c15.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_uctbx_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/de/61e401870e3a57cbcc71c91104c130fe602c15.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_uctbx_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/26 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_stl_map_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/26/d2eb44b9c809639724b3aa6ff0016cf7af6ef2.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/26/d2eb44b9c809639724b3aa6ff0016cf7af6ef2.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_stl_map_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/26/d2eb44b9c809639724b3aa6ff0016cf7af6ef2.debug debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_stl_map_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fa objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_python_streambuf_test_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fa/5a443a4eb313df7710660f506b2bc13b1278a8.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fa/5a443a4eb313df7710660f506b2bc13b1278a8.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_python_streambuf_test_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fa/5a443a4eb313df7710660f506b2bc13b1278a8.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_python_streambuf_test_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/af objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_optimise_amplitudes_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/af/865c5bbdcbf09ca5394163755d3d5cdd199acc.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/af/865c5bbdcbf09ca5394163755d3d5cdd199acc.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_optimise_amplitudes_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/af/865c5bbdcbf09ca5394163755d3d5cdd199acc.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_optimise_amplitudes_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ae objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_tiny_pse_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ae/31882f6e8ce400cfc581a52afeec54761c3655.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ae/31882f6e8ce400cfc581a52afeec54761c3655.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_tiny_pse_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ae/31882f6e8ce400cfc581a52afeec54761c3655.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_tiny_pse_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/cc objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_least_squares_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/cc/78df2e80be70bb05f57b50db2843c905721bd1.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/cc/78df2e80be70bb05f57b50db2843c905721bd1.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_least_squares_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/cc/78df2e80be70bb05f57b50db2843c905721bd1.debug debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_least_squares_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c2 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_maptbx_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c2/16103679daf2c125756402efc3734dbdae9807.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c2/16103679daf2c125756402efc3734dbdae9807.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_maptbx_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c2/16103679daf2c125756402efc3734dbdae9807.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_maptbx_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6f objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ramachandran_restraints_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6f/982770d6bc46ffec9443fe19e70c8a423cd1de.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6f/982770d6bc46ffec9443fe19e70c8a423cd1de.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ramachandran_restraints_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6f/982770d6bc46ffec9443fe19e70c8a423cd1de.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ramachandran_restraints_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d1 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_rigid_body_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d1/57a591598805e6c0645664c9e92403f687dbb5.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d1/57a591598805e6c0645664c9e92403f687dbb5.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_rigid_body_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d1/57a591598805e6c0645664c9e92403f687dbb5.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_rigid_body_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f2 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_cif_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f2/93ffc115dd1ad29edf760f53fdd2004abb0c17.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f2/93ffc115dd1ad29edf760f53fdd2004abb0c17.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_cif_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f2/93ffc115dd1ad29edf760f53fdd2004abb0c17.debug debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_cif_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7e objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_util_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7e/75967503282f5c2cb7362aeb9d7b7bc1bb96e6.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7e/75967503282f5c2cb7362aeb9d7b7bc1bb96e6.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_util_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7e/75967503282f5c2cb7362aeb9d7b7bc1bb96e6.debug debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_util_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/55 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_fp_fdp_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/55/3028b96e73bfb133f355d5948ce90ca98af988.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/55/3028b96e73bfb133f355d5948ce90ca98af988.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_fp_fdp_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/55/3028b96e73bfb133f355d5948ce90ca98af988.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_fp_fdp_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/59 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_maptbx_bcr_bcr_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/59/07115eb23bbfd321ee5d7398b73e29e453a98b.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/59/07115eb23bbfd321ee5d7398b73e29e453a98b.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_maptbx_bcr_bcr_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/59/07115eb23bbfd321ee5d7398b73e29e453a98b.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_maptbx_bcr_bcr_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e5 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_sgtbx_asu_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e5/a1e552ea5d9b8bd6e01e414feedaeeeec92351.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e5/a1e552ea5d9b8bd6e01e414feedaeeeec92351.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_sgtbx_asu_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e5/a1e552ea5d9b8bd6e01e414feedaeeeec92351.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_sgtbx_asu_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fc objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_structure_factors_direct_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fc/e5cceb8e5d0a2b91032ca21514e33b70cdce1d.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fc/e5cceb8e5d0a2b91032ca21514e33b70cdce1d.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_structure_factors_direct_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fc/e5cceb8e5d0a2b91032ca21514e33b70cdce1d.debug debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_structure_factors_direct_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/52 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_fonts_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/52/6b9b1cd7f2c59f4d83ba13869622bcdab2467e.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/52/6b9b1cd7f2c59f4d83ba13869622bcdab2467e.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_fonts_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/52/6b9b1cd7f2c59f4d83ba13869622bcdab2467e.debug debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_fonts_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1d objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_wigner_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1d/e8e23abbb988e10b834f06d93e614929338dee.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1d/e8e23abbb988e10b834f06d93e614929338dee.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_wigner_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1d/e8e23abbb988e10b834f06d93e614929338dee.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_wigner_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/41 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_random_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/41/62d7f6304cab06064a00188499ff1fe243f262.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/41/62d7f6304cab06064a00188499ff1fe243f262.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_random_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/41/62d7f6304cab06064a00188499ff1fe243f262.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_random_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b8 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_detectors_bruker_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b8/34890a72ed7036532981297c65e0ea93facd93.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b8/34890a72ed7036532981297c65e0ea93facd93.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_detectors_bruker_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b8/34890a72ed7036532981297c65e0ea93facd93.debug debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_detectors_bruker_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a3 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_asa_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a3/946b4f1ad3157023dd76e74cc0d4f1455a6be3.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a3/946b4f1ad3157023dd76e74cc0d4f1455a6be3.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_asa_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a3/946b4f1ad3157023dd76e74cc0d4f1455a6be3.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_asa_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e8 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e8/640cae4d01d120ce9ddd49e842f319b0a8e009.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e8/640cae4d01d120ce9ddd49e842f319b0a8e009.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e8/640cae4d01d120ce9ddd49e842f319b0a8e009.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/67 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_pair_interaction_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/67/9656028782197cf5dbb7fff2b316b0c0718224.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/67/9656028782197cf5dbb7fff2b316b0c0718224.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_pair_interaction_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/67/9656028782197cf5dbb7fff2b316b0c0718224.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_pair_interaction_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/88 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_mtz_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/88/f6d150192cf767918fce51b9360014501a9979.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/88/f6d150192cf767918fce51b9360014501a9979.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_mtz_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/88/f6d150192cf767918fce51b9360014501a9979.debug debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_mtz_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5a objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reduce_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5a/1831386701eb56937380756e88cac4155fdc11.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5a/1831386701eb56937380756e88cac4155fdc11.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reduce_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5a/1831386701eb56937380756e88cac4155fdc11.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reduce_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4f objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_building_loop_closure_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4f/15dc0f9160274012cb720bd717ff385471c79a.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4f/15dc0f9160274012cb720bd717ff385471c79a.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_building_loop_closure_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4f/15dc0f9160274012cb720bd717ff385471c79a.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_building_loop_closure_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c8 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_emma_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c8/28951ad84ddd105c5d1413a64d253b58dd8bbe.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c8/28951ad84ddd105c5d1413a64d253b58dd8bbe.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_emma_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c8/28951ad84ddd105c5d1413a64d253b58dd8bbe.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_emma_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/0e objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_scaling_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/0e/57db115dae4091d5e96d60042c86932e57324c.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/0e/57db115dae4091d5e96d60042c86932e57324c.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_scaling_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/0e/57db115dae4091d5e96d60042c86932e57324c.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_scaling_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ca objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_hydrogens_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ca/9d8f2163899e73e7bb91d3c6dd87b621b34ed7.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ca/9d8f2163899e73e7bb91d3c6dd87b621b34ed7.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_hydrogens_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ca/9d8f2163899e73e7bb91d3c6dd87b621b34ed7.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_hydrogens_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e0 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_masks_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e0/eb21fcfe1dcc5e101cf7995eb572fa7cba43b7.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e0/eb21fcfe1dcc5e101cf7995eb572fa7cba43b7.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_masks_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e0/eb21fcfe1dcc5e101cf7995eb572fa7cba43b7.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_masks_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/45 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reference_coordinate_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/45/1448428ba25d93ee07be0ea20d2e2f6b04299c.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/45/1448428ba25d93ee07be0ea20d2e2f6b04299c.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reference_coordinate_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/45/1448428ba25d93ee07be0ea20d2e2f6b04299c.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reference_coordinate_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/52 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_shelx_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/52/fd32f80ed318680ed67e3bd0ede0dc64071f59.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/52/fd32f80ed318680ed67e3bd0ede0dc64071f59.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_shelx_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/52/fd32f80ed318680ed67e3bd0ede0dc64071f59.debug debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_shelx_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/86 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lbfgsb_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/86/6e54871c2a8e9b4199dc2ebd6f1dbd4bc7fb7c.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/86/6e54871c2a8e9b4199dc2ebd6f1dbd4bc7fb7c.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lbfgsb_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/86/6e54871c2a8e9b4199dc2ebd6f1dbd4bc7fb7c.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lbfgsb_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/99 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_map_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/99/d336fe4b125b2a3da3c3c312eaba13270a3c6e.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/99/d336fe4b125b2a3da3c3c312eaba13270a3c6e.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_map_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/99/d336fe4b125b2a3da3c3c312eaba13270a3c6e.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_map_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b5 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_adptbx_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b5/cdbd88f803306a8b41ca53cf1a5b5e19f1537c.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b5/cdbd88f803306a8b41ca53cf1a5b5e19f1537c.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_adptbx_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b5/cdbd88f803306a8b41ca53cf1a5b5e19f1537c.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_adptbx_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2d objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_dmtbx_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2d/433b86dbc111ac13481fbacf658ecf651e6cc3.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2d/433b86dbc111ac13481fbacf658ecf651e6cc3.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_dmtbx_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2d/433b86dbc111ac13481fbacf658ecf651e6cc3.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_dmtbx_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/79 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_symmetry_constraints_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/79/7a1dc052cfc85c079b2cdbdedc50055e4267b8.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/79/7a1dc052cfc85c079b2cdbdedc50055e4267b8.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_symmetry_constraints_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/79/7a1dc052cfc85c079b2cdbdedc50055e4267b8.debug debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_symmetry_constraints_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ef objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_maximum_clique_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ef/0d08b5f16a942ffdc92bf916bb31ba6a8cd720.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ef/0d08b5f16a942ffdc92bf916bb31ba6a8cd720.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_maximum_clique_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ef/0d08b5f16a942ffdc92bf916bb31ba6a8cd720.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_maximum_clique_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1e objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_masks_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1e/36f254f64a2bbf5c2f0e6bd02e2f1a2a3439c3.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1e/36f254f64a2bbf5c2f0e6bd02e2f1a2a3439c3.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_masks_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1e/36f254f64a2bbf5c2f0e6bd02e2f1a2a3439c3.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_masks_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/56 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_adptbx_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/56/f3dd27effd6352661ee987f749add76b96e3c7.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/56/f3dd27effd6352661ee987f749add76b96e3c7.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_adptbx_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/56/f3dd27effd6352661ee987f749add76b96e3c7.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_adptbx_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/0a objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_rigid_body_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/0a/ac42d3c523346a227ee17469c713a92abf376f.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/0a/ac42d3c523346a227ee17469c713a92abf376f.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_rigid_body_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/0a/ac42d3c523346a227ee17469c713a92abf376f.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_rigid_body_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6a objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simage_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6a/a61ba27fa334fa98174e1ea97cb364a1938ac6.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6a/a61ba27fa334fa98174e1ea97cb364a1938ac6.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simage_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6a/a61ba27fa334fa98174e1ea97cb364a1938ac6.debug debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simage_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/77 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cma_es_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/77/72f7e7ef82b4d6c86be8b3d86bce196dc24c2d.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/77/72f7e7ef82b4d6c86be8b3d86bce196dc24c2d.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cma_es_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/77/72f7e7ef82b4d6c86be8b3d86bce196dc24c2d.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cma_es_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f9 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_clustering_algorithm_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f9/ea4e828b93908255c970aa5e23504225baf8a7.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f9/ea4e828b93908255c970aa5e23504225baf8a7.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_clustering_algorithm_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f9/ea4e828b93908255c970aa5e23504225baf8a7.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_clustering_algorithm_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/41 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_fonts_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/41/dc17e89073151328ac5b3e67343a981b767577.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/41/dc17e89073151328ac5b3e67343a981b767577.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_fonts_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/41/dc17e89073151328ac5b3e67343a981b767577.debug debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_fonts_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c9 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_gl_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c9/ec91db3b958c1b6b302afb0d54a61127a90aa8.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c9/ec91db3b958c1b6b302afb0d54a61127a90aa8.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_gl_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c9/ec91db3b958c1b6b302afb0d54a61127a90aa8.debug debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_gl_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b1 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_rational_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b1/c413b11e411dedad9b4b9882141f95c08e06f3.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b1/c413b11e411dedad9b4b9882141f95c08e06f3.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_rational_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b1/c413b11e411dedad9b4b9882141f95c08e06f3.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_rational_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/59 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_tuple_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/59/9e4b65bf964df0df6ae152be70ddbab394e914.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/59/9e4b65bf964df0df6ae152be70ddbab394e914.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_tuple_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/59/9e4b65bf964df0df6ae152be70ddbab394e914.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_tuple_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1a objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_attenuation_coefficient_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1a/6aba17e979f8f95cbeafb552e7930408948256.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1a/6aba17e979f8f95cbeafb552e7930408948256.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_attenuation_coefficient_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1a/6aba17e979f8f95cbeafb552e7930408948256.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_attenuation_coefficient_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4c objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_decompose_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4c/3fbad884640b40ea63227bdecd2dcc6c578bf3.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4c/3fbad884640b40ea63227bdecd2dcc6c578bf3.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_decompose_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4c/3fbad884640b40ea63227bdecd2dcc6c578bf3.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_decompose_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/77 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_alignment_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/77/4cccd794217c5b6739450c52c0fc5246ff6ddd.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/77/4cccd794217c5b6739450c52c0fc5246ff6ddd.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_alignment_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/77/4cccd794217c5b6739450c52c0fc5246ff6ddd.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_alignment_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e0 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_sparse_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e0/e5d1403cd71a5cdaaf0c7f454dcdf7ec8520d0.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e0/e5d1403cd71a5cdaaf0c7f454dcdf7ec8520d0.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_sparse_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e0/e5d1403cd71a5cdaaf0c7f454dcdf7ec8520d0.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_sparse_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/29 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_flumpy.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/29/18e6cd97e75fa43c15533e26452285975d394b.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/29/18e6cd97e75fa43c15533e26452285975d394b.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_flumpy.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/29/18e6cd97e75fa43c15533e26452285975d394b.debug debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_flumpy.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7b objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_anharmonic_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7b/0554dde2e696cf81a90539e51e4d247d88eb61.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7b/0554dde2e696cf81a90539e51e4d247d88eb61.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_anharmonic_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7b/0554dde2e696cf81a90539e51e4d247d88eb61.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_anharmonic_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/59 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_suffixtree_single_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/59/1126de28152e0458df803f04e2abcf4c4d6ee1.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/59/1126de28152e0458df803f04e2abcf4c4d6ee1.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_suffixtree_single_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/59/1126de28152e0458df803f04e2abcf4c4d6ee1.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_suffixtree_single_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a1 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_utility_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a1/d9d6d9a72a94c01035a071a176b69a77e2a799.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a1/d9d6d9a72a94c01035a071a176b69a77e2a799.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_utility_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a1/d9d6d9a72a94c01035a071a176b69a77e2a799.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_utility_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/97 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_min_cut_max_flow_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/97/aa402dfebc0304dd547ad265ade04fc4434577.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/97/aa402dfebc0304dd547ad265ade04fc4434577.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_min_cut_max_flow_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/97/aa402dfebc0304dd547ad265ade04fc4434577.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_min_cut_max_flow_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ca objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_math_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ca/1329cd5a07798dd4c81b7dc900d64511f317aa.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ca/1329cd5a07798dd4c81b7dc900d64511f317aa.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_math_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ca/1329cd5a07798dd4c81b7dc900d64511f317aa.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_math_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9c objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_tiny_pse_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9c/cea5ce2c169076e3b39d2351d59530559fe62c.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9c/cea5ce2c169076e3b39d2351d59530559fe62c.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_tiny_pse_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9c/cea5ce2c169076e3b39d2351d59530559fe62c.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_tiny_pse_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/34 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_geometry_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/34/6d87e44aedf13ceef38a0c623177221df6a035.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/34/6d87e44aedf13ceef38a0c623177221df6a035.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_geometry_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/34/6d87e44aedf13ceef38a0c623177221df6a035.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_geometry_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/02 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_xray_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/02/3aa71fb19152e2aff2e912564019207ba62546.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/02/3aa71fb19152e2aff2e912564019207ba62546.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_xray_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/02/3aa71fb19152e2aff2e912564019207ba62546.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_xray_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9c objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_least_squares_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9c/c6c09967e7d8418a0aa989b867f9aec70a1ab0.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9c/c6c09967e7d8418a0aa989b867f9aec70a1ab0.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_least_squares_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9c/c6c09967e7d8418a0aa989b867f9aec70a1ab0.debug debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_least_squares_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8b objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_covariance_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8b/375f1b9704251e41ae8ca9dc79f3bcf5f66f91.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8b/375f1b9704251e41ae8ca9dc79f3bcf5f66f91.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_covariance_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8b/375f1b9704251e41ae8ca9dc79f3bcf5f66f91.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_covariance_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8d objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_building_loop_closure_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8d/68ce3da13fbaf5fae15004ac7e5059bed37e27.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8d/68ce3da13fbaf5fae15004ac7e5059bed37e27.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_building_loop_closure_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8d/68ce3da13fbaf5fae15004ac7e5059bed37e27.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_building_loop_closure_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/0b objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/fable_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/0b/1921104e82c4c2591e142d1f5fed8f24a10584.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/0b/1921104e82c4c2591e142d1f5fed8f24a10584.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/fable_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/0b/1921104e82c4c2591e142d1f5fed8f24a10584.debug debian/python3-cctbx/usr/lib/python3/dist-packages/fable_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/41 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_integration_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/41/bebf13669793348677d4a0dffd530e3ebfb5ff.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/41/bebf13669793348677d4a0dffd530e3ebfb5ff.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_integration_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/41/bebf13669793348677d4a0dffd530e3ebfb5ff.debug debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_integration_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/03 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reference_coordinate_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/03/b011084ca8ff0267fea7308d684fcb60f64a50.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/03/b011084ca8ff0267fea7308d684fcb60f64a50.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reference_coordinate_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/03/b011084ca8ff0267fea7308d684fcb60f64a50.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reference_coordinate_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/95 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_linalg_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/95/df546f58f4d82cfb6d78a83d42785812fed8b3.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/95/df546f58f4d82cfb6d78a83d42785812fed8b3.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_linalg_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/95/df546f58f4d82cfb6d78a83d42785812fed8b3.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_linalg_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4b objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_flumpy.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4b/a1d726597fd4a08d9046e8041211af4f4e12a1.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4b/a1d726597fd4a08d9046e8041211af4f4e12a1.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_flumpy.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4b/a1d726597fd4a08d9046e8041211af4f4e12a1.debug debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_flumpy.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/23 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/annlib_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/23/b9c2c6d7d222804a4232be7e29efeac5e3ee09.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/23/b9c2c6d7d222804a4232be7e29efeac5e3ee09.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/annlib_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/23/b9c2c6d7d222804a4232be7e29efeac5e3ee09.debug debian/python3-cctbx/usr/lib/python3/dist-packages/annlib_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/04 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_glu_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/04/64097cd143b2c2f388f24511a3653507770bdf.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/04/64097cd143b2c2f388f24511a3653507770bdf.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_glu_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/04/64097cd143b2c2f388f24511a3653507770bdf.debug debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_glu_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b8 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_glmtbx_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b8/072a596368f83bda2af0162ea4bb45fcc0fa5f.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b8/072a596368f83bda2af0162ea4bb45fcc0fa5f.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_glmtbx_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b8/072a596368f83bda2af0162ea4bb45fcc0fa5f.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_glmtbx_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f5 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_xray_scattering_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f5/09706cc42c4a280f3c394fbd8943c22aead8b0.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f5/09706cc42c4a280f3c394fbd8943c22aead8b0.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_xray_scattering_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f5/09706cc42c4a280f3c394fbd8943c22aead8b0.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_xray_scattering_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/36 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cma_es_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/36/05ff4c804a674daae78c203e0fd2516f19b2ab.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/36/05ff4c804a674daae78c203e0fd2516f19b2ab.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cma_es_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/36/05ff4c804a674daae78c203e0fd2516f19b2ab.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cma_es_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/de objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_linalg_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/de/02383bcf90fb58f46a71e367cc5ee9b8e06411.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/de/02383bcf90fb58f46a71e367cc5ee9b8e06411.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_linalg_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/de/02383bcf90fb58f46a71e367cc5ee9b8e06411.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_linalg_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b6 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_array_family_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b6/aea94254042c13e17f9eb4af931feb3a638bbd.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b6/aea94254042c13e17f9eb4af931feb3a638bbd.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_array_family_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b6/aea94254042c13e17f9eb4af931feb3a638bbd.debug debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_array_family_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a0 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_shared_types_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a0/0fccc29b586b5820cf217e2548a4ca87edd752.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a0/0fccc29b586b5820cf217e2548a4ca87edd752.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_shared_types_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a0/0fccc29b586b5820cf217e2548a4ca87edd752.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_shared_types_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1a objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_dynamics_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1a/d400ea06cfa229aac22abfbc3cf4f1fb32a221.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1a/d400ea06cfa229aac22abfbc3cf4f1fb32a221.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_dynamics_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1a/d400ea06cfa229aac22abfbc3cf4f1fb32a221.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_dynamics_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6d objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_sgtbx_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6d/910bcf7a24ece4ea513896fc5ab269498a9cdf.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6d/910bcf7a24ece4ea513896fc5ab269498a9cdf.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_sgtbx_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6d/910bcf7a24ece4ea513896fc5ab269498a9cdf.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_sgtbx_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/41 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_primitive_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/41/b82678178f68b25b90616fb8846d162c2ac5c2.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/41/b82678178f68b25b90616fb8846d162c2ac5c2.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_primitive_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/41/b82678178f68b25b90616fb8846d162c2ac5c2.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_primitive_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ea objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_ab_initio_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ea/eb136fab4f87a9dacb28f3a475e2bf78c0912c.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ea/eb136fab4f87a9dacb28f3a475e2bf78c0912c.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_ab_initio_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ea/eb136fab4f87a9dacb28f3a475e2bf78c0912c.debug debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_ab_initio_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/15 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_cif_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/15/921c4c488fbaacac9d4cedda61178c1052086c.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/15/921c4c488fbaacac9d4cedda61178c1052086c.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_cif_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/15/921c4c488fbaacac9d4cedda61178c1052086c.debug debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_cif_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/49 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_indexing_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/49/454975f4529d73d853256487c1b1d68324aad3.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/49/454975f4529d73d853256487c1b1d68324aad3.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_indexing_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/49/454975f4529d73d853256487c1b1d68324aad3.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_indexing_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ee objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_clash_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ee/cfdfa0bcdbd9cca8a866e5c83655ade4973443.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ee/cfdfa0bcdbd9cca8a866e5c83655ade4973443.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_clash_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ee/cfdfa0bcdbd9cca8a866e5c83655ade4973443.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_clash_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/17 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_array_family_flex_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/17/7c91135738227fa7e21e15abff5f595a50c08f.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/17/7c91135738227fa7e21e15abff5f595a50c08f.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_array_family_flex_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/17/7c91135738227fa7e21e15abff5f595a50c08f.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_array_family_flex_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/00 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_asymmetric_map_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/00/3b179eee4474b75bcd8f433054bf8f85052bb0.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/00/3b179eee4474b75bcd8f433054bf8f85052bb0.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_asymmetric_map_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/00/3b179eee4474b75bcd8f433054bf8f85052bb0.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_asymmetric_map_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/aa objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_mosaic_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/aa/e892861b897defa59b5b25f06b66ecb2cfb91e.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/aa/e892861b897defa59b5b25f06b66ecb2cfb91e.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_mosaic_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/aa/e892861b897defa59b5b25f06b66ecb2cfb91e.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_mosaic_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f0 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_utils_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f0/9a0121c29f9cc0a9628b20ff6d6d8f645ad777.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f0/9a0121c29f9cc0a9628b20ff6d6d8f645ad777.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_utils_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f0/9a0121c29f9cc0a9628b20ff6d6d8f645ad777.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_utils_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fa objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_suffixtree_single_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fa/af084aef488a3a073b6024da01f24ac2faa65e.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fa/af084aef488a3a073b6024da01f24ac2faa65e.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_suffixtree_single_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fa/af084aef488a3a073b6024da01f24ac2faa65e.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_suffixtree_single_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/08 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_structure_factors_direct_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/08/6a179379ca7ebb1789e9632fd05d9daadee78e.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/08/6a179379ca7ebb1789e9632fd05d9daadee78e.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_structure_factors_direct_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/08/6a179379ca7ebb1789e9632fd05d9daadee78e.debug debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_structure_factors_direct_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/59 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_indexing_api_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/59/dd4103db9fd77b4a535b437b9e112afdd7b4e1.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/59/dd4103db9fd77b4a535b437b9e112afdd7b4e1.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_indexing_api_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/59/dd4103db9fd77b4a535b437b9e112afdd7b4e1.debug debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_indexing_api_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/93 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_xray_observations_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/93/79657247bb5a87cf7823ea9a4829b63e6e049c.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/93/79657247bb5a87cf7823ea9a4829b63e6e049c.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_xray_observations_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/93/79657247bb5a87cf7823ea9a4829b63e6e049c.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_xray_observations_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/cf objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simulation_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/cf/b3f1bca0fcf023609b60af654dcc2b37755dab.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/cf/b3f1bca0fcf023609b60af654dcc2b37755dab.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simulation_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/cf/b3f1bca0fcf023609b60af654dcc2b37755dab.debug debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simulation_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1b objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_french_wilson_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1b/a60f37ac6b19eb8a87c5b33340a56068fd5e3e.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1b/a60f37ac6b19eb8a87c5b33340a56068fd5e3e.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_french_wilson_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1b/a60f37ac6b19eb8a87c5b33340a56068fd5e3e.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_french_wilson_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b0 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_boost_thread_test_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b0/a85bc255e874663da6bacc543fbd4eb8b162ab.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b0/a85bc255e874663da6bacc543fbd4eb8b162ab.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_boost_thread_test_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b0/a85bc255e874663da6bacc543fbd4eb8b162ab.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_boost_thread_test_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a7 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_pair_interaction_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a7/459963860957e445930533ee7bb2f28485436b.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a7/459963860957e445930533ee7bb2f28485436b.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_pair_interaction_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a7/459963860957e445930533ee7bb2f28485436b.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_pair_interaction_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/02 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_clash_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/02/d76a88b860bc437f893bf06bd6301982fc837d.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/02/d76a88b860bc437f893bf06bd6301982fc837d.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_clash_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/02/d76a88b860bc437f893bf06bd6301982fc837d.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_clash_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f0 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_viewer_utils_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f0/8371128dea124afbe8e5f29b53afb1e22d30e0.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f0/8371128dea124afbe8e5f29b53afb1e22d30e0.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_viewer_utils_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f0/8371128dea124afbe8e5f29b53afb1e22d30e0.debug debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_viewer_utils_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/71 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ncs_cartesian_restraints_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/71/5b92f4a86486267d973fee457bd949c259d391.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/71/5b92f4a86486267d973fee457bd949c259d391.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ncs_cartesian_restraints_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/71/5b92f4a86486267d973fee457bd949c259d391.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ncs_cartesian_restraints_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6e objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_hierarchy_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6e/d3d25f8b7b73fa4d500943cbaf3703d523bc88.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6e/d3d25f8b7b73fa4d500943cbaf3703d523bc88.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_hierarchy_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6e/d3d25f8b7b73fa4d500943cbaf3703d523bc88.debug debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_hierarchy_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b8 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/ccp4io_adaptbx_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b8/ddb4043e0788b52b9234cb36600f4249378f45.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b8/ddb4043e0788b52b9234cb36600f4249378f45.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/ccp4io_adaptbx_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b8/ddb4043e0788b52b9234cb36600f4249378f45.debug debian/python3-cctbx/usr/lib/python3/dist-packages/ccp4io_adaptbx_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d8 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_utils_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d8/025de6555cc7ecdacf1d8b8094b5180b319bc3.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d8/025de6555cc7ecdacf1d8b8094b5180b319bc3.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_utils_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d8/025de6555cc7ecdacf1d8b8094b5180b319bc3.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_utils_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/01 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_wildcard_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/01/d8b21ac12e6d5c6c09f8782f3e1d790c5cdd03.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/01/d8b21ac12e6d5c6c09f8782f3e1d790c5cdd03.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_wildcard_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/01/d8b21ac12e6d5c6c09f8782f3e1d790c5cdd03.debug debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_wildcard_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4b objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/regression_test_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4b/b31da9ddb7a607f3d575552ce256bc599eb160.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4b/b31da9ddb7a607f3d575552ce256bc599eb160.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/regression_test_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4b/b31da9ddb7a607f3d575552ce256bc599eb160.debug debian/python3-cctbx/usr/lib/python3/dist-packages/regression_test_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/67 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_format_nexus_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/67/37ee46d4bc713c58ff0a73e58519f4f2aedc61.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/67/37ee46d4bc713c58ff0a73e58519f4f2aedc61.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_format_nexus_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/67/37ee46d4bc713c58ff0a73e58519f4f2aedc61.debug debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_format_nexus_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1e objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_anharmonic_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1e/b885895d7a57522958b331fa9a7dfff95a14b7.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1e/b885895d7a57522958b331fa9a7dfff95a14b7.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_anharmonic_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1e/b885895d7a57522958b331fa9a7dfff95a14b7.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_anharmonic_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/dd objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_hough_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/dd/61735f41497f777e92b2ddf2a5d5ccc5912c3a.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/dd/61735f41497f777e92b2ddf2a5d5ccc5912c3a.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_hough_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/dd/61735f41497f777e92b2ddf2a5d5ccc5912c3a.debug debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_hough_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/32 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_scalepack_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/32/3a221d45b776414cd321b445966e05a50015a5.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/32/3a221d45b776414cd321b445966e05a50015a5.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_scalepack_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/32/3a221d45b776414cd321b445966e05a50015a5.debug debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_scalepack_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fa objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_mtz_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fa/5b64cd406d4cc77d5d0e33f4aa04d73384c412.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fa/5b64cd406d4cc77d5d0e33f4aa04d73384c412.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_mtz_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fa/5b64cd406d4cc77d5d0e33f4aa04d73384c412.debug debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_mtz_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5b objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_graph_structure_comparison_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5b/c8259d83c06a3521bdbb1886ff1ba3c1a1c4ec.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5b/c8259d83c06a3521bdbb1886ff1ba3c1a1c4ec.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_graph_structure_comparison_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5b/c8259d83c06a3521bdbb1886ff1ba3c1a1c4ec.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_graph_structure_comparison_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f6 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_masks_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f6/415c80c11d1a4e0a1e731b76717b43abc7eb99.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f6/415c80c11d1a4e0a1e731b76717b43abc7eb99.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_masks_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f6/415c80c11d1a4e0a1e731b76717b43abc7eb99.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_masks_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fc objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_optimise_amplitudes_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fc/89b4feb5114dcb3ddf09132df98f30d01ebb96.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fc/89b4feb5114dcb3ddf09132df98f30d01ebb96.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_optimise_amplitudes_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fc/89b4feb5114dcb3ddf09132df98f30d01ebb96.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_optimise_amplitudes_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/41 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_detectors_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/41/eacc9ce9787bea59247e2d586d7b94d04efeac.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/41/eacc9ce9787bea59247e2d586d7b94d04efeac.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_detectors_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/41/eacc9ce9787bea59247e2d586d7b94d04efeac.debug debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_detectors_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/3c objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simulation_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/3c/e36456f652a7654128850c7df5c9c3c4c9a340.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/3c/e36456f652a7654128850c7df5c9c3c4c9a340.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simulation_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/3c/e36456f652a7654128850c7df5c9c3c4c9a340.debug debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simulation_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/09 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_geometry_restraints_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/09/008987b2b6dc121af14ff8d98f19f64f0eaae5.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/09/008987b2b6dc121af14ff8d98f19f64f0eaae5.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_geometry_restraints_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/09/008987b2b6dc121af14ff8d98f19f64f0eaae5.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_geometry_restraints_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/02 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_vector_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/02/4b2d9f64c6556a8803cc467af22b10ef1410be.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/02/4b2d9f64c6556a8803cc467af22b10ef1410be.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_vector_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/02/4b2d9f64c6556a8803cc467af22b10ef1410be.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_vector_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/49 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_cubicle_neighbors_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/49/d3552ebab888b3cd00a82467fe916363e4cf0c.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/49/d3552ebab888b3cd00a82467fe916363e4cf0c.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_cubicle_neighbors_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/49/d3552ebab888b3cd00a82467fe916363e4cf0c.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_cubicle_neighbors_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/16 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_array_family_flex_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/16/62af6e9b34e641316bb628aa8b29c7c4263f7d.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/16/62af6e9b34e641316bb628aa8b29c7c4263f7d.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_array_family_flex_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/16/62af6e9b34e641316bb628aa8b29c7c4263f7d.debug debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_array_family_flex_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2d objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_sasaki_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2d/13113a37701db335f0ee85fbab54dfeb3cfe22.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2d/13113a37701db335f0ee85fbab54dfeb3cfe22.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_sasaki_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2d/13113a37701db335f0ee85fbab54dfeb3cfe22.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_sasaki_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/71 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_suffixtree_shared_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/71/57754fcce5b62534afd7eb5b802f3f959b74cb.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/71/57754fcce5b62534afd7eb5b802f3f959b74cb.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_suffixtree_shared_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/71/57754fcce5b62534afd7eb5b802f3f959b74cb.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_suffixtree_shared_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/16 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_distltbx_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/16/7c00ec57a895fc2ffed7a0cfbd2d8685824515.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/16/7c00ec57a895fc2ffed7a0cfbd2d8685824515.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_distltbx_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/16/7c00ec57a895fc2ffed7a0cfbd2d8685824515.debug debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_distltbx_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/00 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_sgtbx_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/00/688386b085a9a3757721fd9f511ce29c86b1d8.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/00/688386b085a9a3757721fd9f511ce29c86b1d8.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_sgtbx_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/00/688386b085a9a3757721fd9f511ce29c86b1d8.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_sgtbx_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/59 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/omptbx_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/59/a1f9b786f247446b217cab0e44e83dd632f008.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/59/a1f9b786f247446b217cab0e44e83dd632f008.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/omptbx_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/59/a1f9b786f247446b217cab0e44e83dd632f008.debug debian/python3-cctbx/usr/lib/python3/dist-packages/omptbx_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ff objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_statistics_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ff/b29960e12886b514bde8f3dca5e433c0644567.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ff/b29960e12886b514bde8f3dca5e433c0644567.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_statistics_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ff/b29960e12886b514bde8f3dca5e433c0644567.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_statistics_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6a objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_ccp4_map_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6a/7f62aa868c0a053551dea92c1844f6502a4cdd.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6a/7f62aa868c0a053551dea92c1844f6502a4cdd.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_ccp4_map_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6a/7f62aa868c0a053551dea92c1844f6502a4cdd.debug debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_ccp4_map_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e7 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_maximum_clique_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e7/33636836b9d51add467304640018619a186dab.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e7/33636836b9d51add467304640018619a186dab.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_maximum_clique_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e7/33636836b9d51add467304640018619a186dab.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_maximum_clique_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/94 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_multipolar_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/94/3b15137cdf7a9a880bde3b22ba27dcd2f21fc6.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/94/3b15137cdf7a9a880bde3b22ba27dcd2f21fc6.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_multipolar_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/94/3b15137cdf7a9a880bde3b22ba27dcd2f21fc6.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_multipolar_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d0 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_hydrogens_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d0/385986cb189e54a6d35ffed516c132934571ba.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d0/385986cb189e54a6d35ffed516c132934571ba.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_hydrogens_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d0/385986cb189e54a6d35ffed516c132934571ba.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_hydrogens_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/70 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_glmtbx_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/70/6ca3c5a26ef108607ca522f2ca97c5dfad7df1.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/70/6ca3c5a26ef108607ca522f2ca97c5dfad7df1.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_glmtbx_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/70/6ca3c5a26ef108607ca522f2ca97c5dfad7df1.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_glmtbx_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/95 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_sgtbx_asu_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/95/cdadc378eba02da4ca012ebf9278b6bcc320cb.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/95/cdadc378eba02da4ca012ebf9278b6bcc320cb.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_sgtbx_asu_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/95/cdadc378eba02da4ca012ebf9278b6bcc320cb.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_sgtbx_asu_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5c objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_utils_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5c/d091b92854f809f0024a48cbb5fb34b939bc4b.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5c/d091b92854f809f0024a48cbb5fb34b939bc4b.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_utils_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5c/d091b92854f809f0024a48cbb5fb34b939bc4b.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_utils_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/51 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_translation_search_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/51/cea71731315452a06aa528635ceb81373c0f2c.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/51/cea71731315452a06aa528635ceb81373c0f2c.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_translation_search_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/51/cea71731315452a06aa528635ceb81373c0f2c.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_translation_search_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/85 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_icsd_radii_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/85/1e5383c04f23065300c4cae17f9fa2e2b44d24.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/85/1e5383c04f23065300c4cae17f9fa2e2b44d24.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_icsd_radii_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/85/1e5383c04f23065300c4cae17f9fa2e2b44d24.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_icsd_radii_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b0 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bpcx_detector_model_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b0/996a78bb494ab3b204c73a8a579278312bf32a.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b0/996a78bb494ab3b204c73a8a579278312bf32a.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bpcx_detector_model_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b0/996a78bb494ab3b204c73a8a579278312bf32a.debug debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bpcx_detector_model_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d1 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_max_lik_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d1/a4d58a8dbaf6afcaf42dae110a5db60f7d7ee4.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d1/a4d58a8dbaf6afcaf42dae110a5db60f7d7ee4.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_max_lik_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d1/a4d58a8dbaf6afcaf42dae110a5db60f7d7ee4.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_max_lik_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c9 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c9/f373486f80f0441c8a2c09dd04244eff293d82.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c9/f373486f80f0441c8a2c09dd04244eff293d82.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c9/f373486f80f0441c8a2c09dd04244eff293d82.debug debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/da objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_utils_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/da/a38847fc2cdc61e878095c7d49229ba7a7b62b.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/da/a38847fc2cdc61e878095c7d49229ba7a7b62b.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_utils_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/da/a38847fc2cdc61e878095c7d49229ba7a7b62b.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_utils_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/01 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_hough_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/01/32326faa20160ca2ebe5ce25669ac1185f7ab0.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/01/32326faa20160ca2ebe5ce25669ac1185f7ab0.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_hough_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/01/32326faa20160ca2ebe5ce25669ac1185f7ab0.debug debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_hough_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4e objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4e/51ef423124887552cb564d0fd54163e6818c8b.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4e/51ef423124887552cb564d0fd54163e6818c8b.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4e/51ef423124887552cb564d0fd54163e6818c8b.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/0a objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_alignment_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/0a/cf76b5198aa85b7d21f7bbd54c5fd9799b1326.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/0a/cf76b5198aa85b7d21f7bbd54c5fd9799b1326.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_alignment_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/0a/cf76b5198aa85b7d21f7bbd54c5fd9799b1326.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_alignment_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c0 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_xray_scattering_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c0/14cf5671eb8e52fda127d3617799b1e5ae0412.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c0/14cf5671eb8e52fda127d3617799b1e5ae0412.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_xray_scattering_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c0/14cf5671eb8e52fda127d3617799b1e5ae0412.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_xray_scattering_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4d objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_iso_surface_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4d/c105c4b11068eead0243326540a4a66887f294.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4d/c105c4b11068eead0243326540a4a66887f294.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_iso_surface_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4d/c105c4b11068eead0243326540a4a66887f294.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_iso_surface_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/95 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_geometry_restraints_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/95/708f2fed735a57858cf9aec2f986f2d1a36ca0.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/95/708f2fed735a57858cf9aec2f986f2d1a36ca0.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_geometry_restraints_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/95/708f2fed735a57858cf9aec2f986f2d1a36ca0.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_geometry_restraints_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/22 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_diffraction_fastbragg_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/22/c7123f5a1fa9c9ef399d4571a553a9ef7bf8c6.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/22/c7123f5a1fa9c9ef399d4571a553a9ef7bf8c6.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_diffraction_fastbragg_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/22/c7123f5a1fa9c9ef399d4571a553a9ef7bf8c6.debug debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_diffraction_fastbragg_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/42 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_xray_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/42/fa02071913c50323560c05dfca906ae322073e.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/42/fa02071913c50323560c05dfca906ae322073e.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_xray_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/42/fa02071913c50323560c05dfca906ae322073e.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_xray_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/77 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_masks_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/77/1c0d52d13281b4cceebba4a460103eae396789.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/77/1c0d52d13281b4cceebba4a460103eae396789.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_masks_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/77/1c0d52d13281b4cceebba4a460103eae396789.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_masks_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4a objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_merging_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4a/626d1d372b34068cbbe9fd0223ffdaa5bc24e1.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4a/626d1d372b34068cbbe9fd0223ffdaa5bc24e1.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_merging_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4a/626d1d372b34068cbbe9fd0223ffdaa5bc24e1.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_merging_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/79 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/regression_test_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/79/37640e5b11a997458a3f99517452fbeabd53d3.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/79/37640e5b11a997458a3f99517452fbeabd53d3.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/regression_test_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/79/37640e5b11a997458a3f99517452fbeabd53d3.debug debian/python3-cctbx/usr/lib/python3/dist-packages/regression_test_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/02 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_shelx_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/02/0a8ffabb0b907bd0c0fc04fc0abaf039105991.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/02/0a8ffabb0b907bd0c0fc04fc0abaf039105991.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_shelx_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/02/0a8ffabb0b907bd0c0fc04fc0abaf039105991.debug debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_shelx_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/db objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_validation_ramachandran_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/db/6da05402659f78b538b41d6b42227f41f57934.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/db/6da05402659f78b538b41d6b42227f41f57934.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_validation_ramachandran_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/db/6da05402659f78b538b41d6b42227f41f57934.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_validation_ramachandran_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/20 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/20/6d058722c2774fba48dbbb2b458a263f7e9bef.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/20/6d058722c2774fba48dbbb2b458a263f7e9bef.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/20/6d058722c2774fba48dbbb2b458a263f7e9bef.debug debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/33 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_crystal_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/33/98d99f0e3a5c66ab9880be2f3dd0c6e4c6a522.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/33/98d99f0e3a5c66ab9880be2f3dd0c6e4c6a522.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_crystal_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/33/98d99f0e3a5c66ab9880be2f3dd0c6e4c6a522.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_crystal_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/aa objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_sparse_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/aa/e3224e0239693a231cf3ec102d4944f6c5b843.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/aa/e3224e0239693a231cf3ec102d4944f6c5b843.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_sparse_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/aa/e3224e0239693a231cf3ec102d4944f6c5b843.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_sparse_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fa objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_array_family_flex_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fa/f9232b00f627919c1a991c98df127a1e9fdc15.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fa/f9232b00f627919c1a991c98df127a1e9fdc15.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_array_family_flex_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fa/f9232b00f627919c1a991c98df127a1e9fdc15.debug debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_array_family_flex_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d6 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_orientation_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d6/581ffce969c1af820b158bcd74f20c4fe9d75b.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d6/581ffce969c1af820b158bcd74f20c4fe9d75b.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_orientation_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d6/581ffce969c1af820b158bcd74f20c4fe9d75b.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_orientation_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6e objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_restraints_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6e/88fc16658a994f03d274a7742d080d8d436f63.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6e/88fc16658a994f03d274a7742d080d8d436f63.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_restraints_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6e/88fc16658a994f03d274a7742d080d8d436f63.debug debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_restraints_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a6 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cbflib_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a6/0ec65ffa8106a3b12807ebb11d297db997501c.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a6/0ec65ffa8106a3b12807ebb11d297db997501c.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cbflib_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a6/0ec65ffa8106a3b12807ebb11d297db997501c.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cbflib_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ef objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/std_pair_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ef/98a570a76f0c61101437e92437c0f05a178510.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ef/98a570a76f0c61101437e92437c0f05a178510.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/std_pair_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ef/98a570a76f0c61101437e92437c0f05a178510.debug debian/python3-cctbx/usr/lib/python3/dist-packages/std_pair_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a3 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_utility_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a3/22c7d58446a70215daf4ce9074680ca040d029.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a3/22c7d58446a70215daf4ce9074680ca040d029.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_utility_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a3/22c7d58446a70215daf4ce9074680ca040d029.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_utility_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/46 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_optional_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/46/6e0893533da76b6070d1f09dfe79ede6e3198b.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/46/6e0893533da76b6070d1f09dfe79ede6e3198b.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_optional_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/46/6e0893533da76b6070d1f09dfe79ede6e3198b.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_optional_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/32 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simage_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/32/8e273c10173bc6b7185a4e2d45c251d2163ffb.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/32/8e273c10173bc6b7185a4e2d45c251d2163ffb.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simage_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/32/8e273c10173bc6b7185a4e2d45c251d2163ffb.debug debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simage_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/21 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_cubicle_neighbors_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/21/58a1af51ad67fc12d94db28fb969b640dab2bc.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/21/58a1af51ad67fc12d94db28fb969b640dab2bc.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_cubicle_neighbors_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/21/58a1af51ad67fc12d94db28fb969b640dab2bc.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_cubicle_neighbors_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/0f objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dsn6_map_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/0f/7e3381f41b8f7b88270035efbcef696283591a.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/0f/7e3381f41b8f7b88270035efbcef696283591a.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dsn6_map_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/0f/7e3381f41b8f7b88270035efbcef696283591a.debug debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dsn6_map_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/69 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/ccp4io_adaptbx_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/69/f4938c339c2156df48a4d6a1edf4e45a2c47da.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/69/f4938c339c2156df48a4d6a1edf4e45a2c47da.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/ccp4io_adaptbx_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/69/f4938c339c2156df48a4d6a1edf4e45a2c47da.debug debian/python3-cctbx/usr/lib/python3/dist-packages/ccp4io_adaptbx_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fb objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_attenuation_coefficient_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fb/4c0074b46b50f36c8060d71bd771ad54cf63fc.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fb/4c0074b46b50f36c8060d71bd771ad54cf63fc.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_attenuation_coefficient_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fb/4c0074b46b50f36c8060d71bd771ad54cf63fc.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_attenuation_coefficient_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/52 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lstbx_normal_equations_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/52/cdebb01a6521eb6c64e9679c561c87f1592e23.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/52/cdebb01a6521eb6c64e9679c561c87f1592e23.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lstbx_normal_equations_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/52/cdebb01a6521eb6c64e9679c561c87f1592e23.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lstbx_normal_equations_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/99 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_fp_fdp_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/99/783ad2f540fb50d3189c2db943a603086274c3.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/99/783ad2f540fb50d3189c2db943a603086274c3.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_fp_fdp_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/99/783ad2f540fb50d3189c2db943a603086274c3.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_fp_fdp_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/42 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_format_nexus_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/42/40a6a93a0ac2f452bced82355a68935fbd1af5.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/42/40a6a93a0ac2f452bced82355a68935fbd1af5.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_format_nexus_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/42/40a6a93a0ac2f452bced82355a68935fbd1af5.debug debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_format_nexus_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/0f objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_miller_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/0f/5dc3f4f97fb259c8adf8d18028d9f2260b3dec.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/0f/5dc3f4f97fb259c8adf8d18028d9f2260b3dec.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_miller_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/0f/5dc3f4f97fb259c8adf8d18028d9f2260b3dec.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_miller_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e1 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_probe_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e1/37ff3871c70eb117accf8733c47d29363e6496.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e1/37ff3871c70eb117accf8733c47d29363e6496.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_probe_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e1/37ff3871c70eb117accf8733c47d29363e6496.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_probe_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b2 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_wigner_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b2/296ca04b7d42782f6d13a4b04cabf594529ef0.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b2/296ca04b7d42782f6d13a4b04cabf594529ef0.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_wigner_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b2/296ca04b7d42782f6d13a4b04cabf594529ef0.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_wigner_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/81 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_translation_search_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/81/44fe1e612f277cc73cdcc924c76280d6f85141.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/81/44fe1e612f277cc73cdcc924c76280d6f85141.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_translation_search_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/81/44fe1e612f277cc73cdcc924c76280d6f85141.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_translation_search_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ab objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_secondary_structure_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ab/daf6f2d03dba9f85dbf4f7a40bf41b42298c99.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ab/daf6f2d03dba9f85dbf4f7a40bf41b42298c99.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_secondary_structure_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ab/daf6f2d03dba9f85dbf4f7a40bf41b42298c99.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_secondary_structure_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6c objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_indexing_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6c/39e1b432f4e65730d1add82823a6037e20ac6f.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6c/39e1b432f4e65730d1add82823a6037e20ac6f.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_indexing_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6c/39e1b432f4e65730d1add82823a6037e20ac6f.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_indexing_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/3f objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_ccp4_map_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/3f/b5092f736a6bbdd6b31bc1cf82bd6acfb649c8.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/3f/b5092f736a6bbdd6b31bc1cf82bd6acfb649c8.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_ccp4_map_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/3f/b5092f736a6bbdd6b31bc1cf82bd6acfb649c8.debug debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_ccp4_map_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/bc objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_random_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/bc/39fbe117a930afcbe945886449f8e28e465916.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/bc/39fbe117a930afcbe945886449f8e28e465916.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_random_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/bc/39fbe117a930afcbe945886449f8e28e465916.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_random_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5a objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dtrek_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5a/377d2be25f1eab4b8ee8b6f8352f0b819a0083.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5a/377d2be25f1eab4b8ee8b6f8352f0b819a0083.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dtrek_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5a/377d2be25f1eab4b8ee8b6f8352f0b819a0083.debug debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dtrek_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1d objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_vector_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1d/4ed1b05b8cdecfac555a97f4beedc1fdf7d5be.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1d/4ed1b05b8cdecfac555a97f4beedc1fdf7d5be.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_vector_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1d/4ed1b05b8cdecfac555a97f4beedc1fdf7d5be.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_vector_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/50 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/50/4242607a8c55acd55483c109076b61dfe15501.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/50/4242607a8c55acd55483c109076b61dfe15501.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/50/4242607a8c55acd55483c109076b61dfe15501.debug debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/96 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_sasaki_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/96/d8df35f603dcde70169bc4676eaf8c8d18d514.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/96/d8df35f603dcde70169bc4676eaf8c8d18d514.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_sasaki_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/96/d8df35f603dcde70169bc4676eaf8c8d18d514.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_sasaki_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/92 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_dxtbx_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/92/fd894bc2c2c66600018e6e32bee03f8737c9c2.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/92/fd894bc2c2c66600018e6e32bee03f8737c9c2.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_dxtbx_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/92/fd894bc2c2c66600018e6e32bee03f8737c9c2.debug debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_dxtbx_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1a objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_icsd_radii_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1a/c555870914ca25ac9b6bd30e2d455b98e0ef7d.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1a/c555870914ca25ac9b6bd30e2d455b98e0ef7d.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_icsd_radii_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1a/c555870914ca25ac9b6bd30e2d455b98e0ef7d.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_icsd_radii_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a7 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_merging_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a7/4f53e764d8aaa5980fa68b32f516968c92374f.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a7/4f53e764d8aaa5980fa68b32f516968c92374f.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_merging_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a7/4f53e764d8aaa5980fa68b32f516968c92374f.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_merging_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a9 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a9/966145eeef34d6ade1db29908cc0fe601f0039.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a9/966145eeef34d6ade1db29908cc0fe601f0039.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a9/966145eeef34d6ade1db29908cc0fe601f0039.debug debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7b objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_format_image_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7b/5cf20eb180e2a33ad04854ba9f6e4f4ff18e21.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7b/5cf20eb180e2a33ad04854ba9f6e4f4ff18e21.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_format_image_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7b/5cf20eb180e2a33ad04854ba9f6e4f4ff18e21.debug debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_format_image_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e7 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_glu_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e7/f8e04012038ee7fa01a4e47ad2560fd928339a.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e7/f8e04012038ee7fa01a4e47ad2560fd928339a.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_glu_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e7/f8e04012038ee7fa01a4e47ad2560fd928339a.debug debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_glu_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d7 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_integration_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d7/bad851ae5fc6c80cce9ce3bbcd0a50d3ad9bc5.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d7/bad851ae5fc6c80cce9ce3bbcd0a50d3ad9bc5.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_integration_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d7/bad851ae5fc6c80cce9ce3bbcd0a50d3ad9bc5.debug debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_integration_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2c objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lbfgs_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2c/5b5e96046ced4fe659c74fd66a8eb0ce682e9d.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2c/5b5e96046ced4fe659c74fd66a8eb0ce682e9d.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lbfgs_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2c/5b5e96046ced4fe659c74fd66a8eb0ce682e9d.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lbfgs_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/bb objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/bb/3b49ffa8650a9e58c8208565d2f0574a35d5cd.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/bb/3b49ffa8650a9e58c8208565d2f0574a35d5cd.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/bb/3b49ffa8650a9e58c8208565d2f0574a35d5cd.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/17 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_array_family_flex_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/17/44ed2c829e389777be7f13bf0b1e34695f88cd.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/17/44ed2c829e389777be7f13bf0b1e34695f88cd.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_array_family_flex_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/17/44ed2c829e389777be7f13bf0b1e34695f88cd.debug debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_array_family_flex_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/92 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bandpass_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/92/11b60de10f4345811bd80aa144dfa9178c3812.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/92/11b60de10f4345811bd80aa144dfa9178c3812.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bandpass_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/92/11b60de10f4345811bd80aa144dfa9178c3812.debug debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bandpass_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ad objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_primitive_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ad/235ecb492a6debc72d9d89c039fb093d479296.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ad/235ecb492a6debc72d9d89c039fb093d479296.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_primitive_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ad/235ecb492a6debc72d9d89c039fb093d479296.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_primitive_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/85 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_wildcard_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/85/51249b7296fb0730f3b3392091ece546f109af.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/85/51249b7296fb0730f3b3392091ece546f109af.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_wildcard_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/85/51249b7296fb0730f3b3392091ece546f109af.debug debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_wildcard_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8e objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_array_family_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8e/9e64b5be9515e0652b1f1ec1ec5d0e37867d1d.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8e/9e64b5be9515e0652b1f1ec1ec5d0e37867d1d.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_array_family_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8e/9e64b5be9515e0652b1f1ec1ec5d0e37867d1d.debug debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_array_family_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ad objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_quadrics_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ad/1a64c2f033bf5963594d7f2a559f5d72160eb0.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ad/1a64c2f033bf5963594d7f2a559f5d72160eb0.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_quadrics_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ad/1a64c2f033bf5963594d7f2a559f5d72160eb0.debug debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_quadrics_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8a objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reduce_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8a/072c29d66765f1706536aa872a2f3e879320cc.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8a/072c29d66765f1706536aa872a2f3e879320cc.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reduce_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8a/072c29d66765f1706536aa872a2f3e879320cc.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reduce_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/77 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cbflib_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/77/0de29acf6149c1c18ecf4b0b68e11cd5e694b5.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/77/0de29acf6149c1c18ecf4b0b68e11cd5e694b5.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cbflib_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/77/0de29acf6149c1c18ecf4b0b68e11cd5e694b5.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cbflib_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/09 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_miller_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/09/fd76ca79c6f485ff036230191b4ead20b3e265.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/09/fd76ca79c6f485ff036230191b4ead20b3e265.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_miller_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/09/fd76ca79c6f485ff036230191b4ead20b3e265.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_miller_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d6 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_set_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d6/3267a178d290c40612285b246ce120ed7fd6be.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d6/3267a178d290c40612285b246ce120ed7fd6be.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_set_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d6/3267a178d290c40612285b246ce120ed7fd6be.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_set_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/28 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_min_cut_max_flow_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/28/b219c8e254ba10f8bd0c2273bfa9349ebb280d.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/28/b219c8e254ba10f8bd0c2273bfa9349ebb280d.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_min_cut_max_flow_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/28/b219c8e254ba10f8bd0c2273bfa9349ebb280d.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_min_cut_max_flow_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/38 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_dmtbx_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/38/8bd5930f8f8590df02da7bc7d8127a91aca10e.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/38/8bd5930f8f8590df02da7bc7d8127a91aca10e.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_dmtbx_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/38/8bd5930f8f8590df02da7bc7d8127a91aca10e.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_dmtbx_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/28 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_clustering_algorithm_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/28/598f609da1050bed5d535991c1d97daacf7630.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/28/598f609da1050bed5d535991c1d97daacf7630.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_clustering_algorithm_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/28/598f609da1050bed5d535991c1d97daacf7630.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_clustering_algorithm_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/78 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_neutron_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/78/3077314c6959c61e28f25b49eb084500ecb5a3.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/78/3077314c6959c61e28f25b49eb084500ecb5a3.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_neutron_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/78/3077314c6959c61e28f25b49eb084500ecb5a3.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_neutron_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/54 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_rational_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/54/0e645d5a70ece46b925baaab60d81d2e93fcaf.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/54/0e645d5a70ece46b925baaab60d81d2e93fcaf.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_rational_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/54/0e645d5a70ece46b925baaab60d81d2e93fcaf.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_rational_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/cd objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_covalent_radii_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/cd/7bc405bbf7a48f989abfda182778716c789d1d.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/cd/7bc405bbf7a48f989abfda182778716c789d1d.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_covalent_radii_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/cd/7bc405bbf7a48f989abfda182778716c789d1d.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_covalent_radii_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/47 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_format_image_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/47/7a3583519e3e019d2d846379bfd122191e9ece.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/47/7a3583519e3e019d2d846379bfd122191e9ece.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_format_image_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/47/7a3583519e3e019d2d846379bfd122191e9ece.debug debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_format_image_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ef objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_quadrics_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ef/970d5fe2d4c4d47bf066efa92dff6829467bef.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ef/970d5fe2d4c4d47bf066efa92dff6829467bef.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_quadrics_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ef/970d5fe2d4c4d47bf066efa92dff6829467bef.debug debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_quadrics_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d8 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_bulk_solvent_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d8/6bc5560eaeaaa9bb29f0380e08def230bd40fa.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d8/6bc5560eaeaaa9bb29f0380e08def230bd40fa.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_bulk_solvent_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d8/6bc5560eaeaaa9bb29f0380e08def230bd40fa.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_bulk_solvent_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d6 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_boost_thread_test_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d6/8ddd7f75ec08716ecd14aa149d58d7891fb6a0.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d6/8ddd7f75ec08716ecd14aa149d58d7891fb6a0.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_boost_thread_test_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d6/8ddd7f75ec08716ecd14aa149d58d7891fb6a0.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_boost_thread_test_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/78 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_rotamer_fit_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/78/6f11b21d8ed444573e8f6a710dc4cb46a1588c.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/78/6f11b21d8ed444573e8f6a710dc4cb46a1588c.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_rotamer_fit_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/78/6f11b21d8ed444573e8f6a710dc4cb46a1588c.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_rotamer_fit_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/73 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_connected_component_algorithm_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/73/9fe9bd6dbb0b357adb1a1f3e64f2c5965d4e03.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/73/9fe9bd6dbb0b357adb1a1f3e64f2c5965d4e03.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_connected_component_algorithm_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/73/9fe9bd6dbb0b357adb1a1f3e64f2c5965d4e03.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_connected_component_algorithm_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ce objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_sphere_surface_sampling_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ce/fde40a15ddda3f2be3561d8386a62b4a52ff03.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ce/fde40a15ddda3f2be3561d8386a62b4a52ff03.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_sphere_surface_sampling_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ce/fde40a15ddda3f2be3561d8386a62b4a52ff03.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_sphere_surface_sampling_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/07 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_asymmetric_map_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/07/769824d5acc9ad7f07709b42742bc5d9a2257c.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/07/769824d5acc9ad7f07709b42742bc5d9a2257c.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_asymmetric_map_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/07/769824d5acc9ad7f07709b42742bc5d9a2257c.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_asymmetric_map_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/23 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_python_streambuf_test_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/23/d28d8db14a84e7bb74b1ca148d2d7dbf2eb586.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/23/d28d8db14a84e7bb74b1ca148d2d7dbf2eb586.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_python_streambuf_test_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/23/d28d8db14a84e7bb74b1ca148d2d7dbf2eb586.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_python_streambuf_test_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/86 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_stl_map_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/86/669c2829bd00ea711e5504c357234b1eec5f5f.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/86/669c2829bd00ea711e5504c357234b1eec5f5f.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_stl_map_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/86/669c2829bd00ea711e5504c357234b1eec5f5f.debug debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_stl_map_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6a objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_connected_component_algorithm_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6a/6b3680b7dbc31dd1eac53808bfabc2039eb534.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6a/6b3680b7dbc31dd1eac53808bfabc2039eb534.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_connected_component_algorithm_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6a/6b3680b7dbc31dd1eac53808bfabc2039eb534.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_connected_component_algorithm_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9e objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_dssp_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9e/34ce10a9e90d25a8a708312d5780f7ad3865c5.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9e/34ce10a9e90d25a8a708312d5780f7ad3865c5.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_dssp_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9e/34ce10a9e90d25a8a708312d5780f7ad3865c5.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_dssp_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/cd objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/cd/a6458cc73e82ca80733d2f824314c2f9aa482a.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/cd/a6458cc73e82ca80733d2f824314c2f9aa482a.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/cd/a6458cc73e82ca80733d2f824314c2f9aa482a.debug debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/75 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_maptbx_bcr_bcr_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/75/fec90e3d4c47a8d75e2adf78067fc27bec825d.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/75/fec90e3d4c47a8d75e2adf78067fc27bec825d.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_maptbx_bcr_bcr_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/75/fec90e3d4c47a8d75e2adf78067fc27bec825d.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_maptbx_bcr_bcr_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7c objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_asa_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7c/396f341bef71c26b5da3caba042ba22586b84c.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7c/396f341bef71c26b5da3caba042ba22586b84c.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_asa_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7c/396f341bef71c26b5da3caba042ba22586b84c.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_asa_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/76 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_imageset_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/76/a7bbdccc644b861d277f2b32f4120f271fe8df.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/76/a7bbdccc644b861d277f2b32f4120f271fe8df.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_imageset_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/76/a7bbdccc644b861d277f2b32f4120f271fe8df.debug debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_imageset_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/64 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_validation_ramachandran_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/64/2fde3a1aa90010299223abcc9255be6d9bfa55.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/64/2fde3a1aa90010299223abcc9255be6d9bfa55.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_validation_ramachandran_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/64/2fde3a1aa90010299223abcc9255be6d9bfa55.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_validation_ramachandran_ext.cpython-313-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8c objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_array_family_flex_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8c/87773512516a5497b943cdd241909f9f782c64.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8c/87773512516a5497b943cdd241909f9f782c64.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_array_family_flex_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8c/87773512516a5497b943cdd241909f9f782c64.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_array_family_flex_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/72 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_max_lik_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/72/fd289ffdb4129658b21c0ab378382f892829df.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/72/fd289ffdb4129658b21c0ab378382f892829df.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_max_lik_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/72/fd289ffdb4129658b21c0ab378382f892829df.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_max_lik_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6f objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_array_family_flex_ext.cpython-314-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6f/6750afe3b78514ce7468f8a8fd99554ba6ec37.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6f/6750afe3b78514ce7468f8a8fd99554ba6ec37.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_array_family_flex_ext.cpython-314-x86_64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6f/6750afe3b78514ce7468f8a8fd99554ba6ec37.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_array_family_flex_ext.cpython-314-x86_64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/57 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_indexing_api_ext.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/57/a62c5faa40863f43bda4326ca52ac56d761ab4.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/57/a62c5faa40863f43bda4326ca52ac56d761ab4.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_indexing_api_ext.cpython-313-x86_64-linux-gnu.so objcopy --add-gnu-debuglink 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debian/python3-cctbx/usr/bin/cctbx.sym_equiv_sites install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7e objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/bin/cbflib.tst_memory debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7e/ecc9362ddbd6bf0f7b765293e2abec6f29ba8b.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7e/ecc9362ddbd6bf0f7b765293e2abec6f29ba8b.debug strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/bin/cbflib.tst_memory objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7e/ecc9362ddbd6bf0f7b765293e2abec6f29ba8b.debug debian/python3-cctbx/usr/bin/cbflib.tst_memory install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/da objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/bin/cctbx.getting_started debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/da/b92295980720c85a163b6e5e5304c138088883.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/da/b92295980720c85a163b6e5e5304c138088883.debug strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/bin/cctbx.getting_started objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/da/b92295980720c85a163b6e5e5304c138088883.debug debian/python3-cctbx/usr/bin/cctbx.getting_started install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.dwz cp --reflink=auto -a debian/python3-cctbx/usr/lib/debug/.dwz/x86_64-linux-gnu debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.dwz rm -fr debian/python3-cctbx/usr/lib/debug/.dwz rmdir -p --ignore-fail-on-non-empty debian/python3-cctbx/usr/lib/debug install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/share/doc ln -s python3-cctbx debian/.debhelper/python3-cctbx/dbgsym-root/usr/share/doc/python3-cctbx-dbgsym install -m0755 -d debian/.debhelper/python3-cctbx dh_makeshlibs -a -O--buildsystem=pybuild rm -f debian/libcctbx0/DEBIAN/shlibs install -m0755 -d debian/libcctbx0/DEBIAN echo "libann_adaptor 0 libcctbx0 (>= 2026.4+ds2+~3.28.0+ds1)" >> debian/libcctbx0/DEBIAN/shlibs echo "libasymmetric_map 0 libcctbx0 (>= 2026.4+ds2+~3.28.0+ds1)" >> debian/libcctbx0/DEBIAN/shlibs echo "libcbf-private 0 libcctbx0 (>= 2026.4+ds2+~3.28.0+ds1)" >> debian/libcctbx0/DEBIAN/shlibs echo "libccp4io 0 libcctbx0 (>= 2026.4+ds2+~3.28.0+ds1)" >> debian/libcctbx0/DEBIAN/shlibs echo "libcctbx 0 libcctbx0 (>= 2026.4+ds2+~3.28.0+ds1)" >> debian/libcctbx0/DEBIAN/shlibs echo "libcctbx_sgtbx_asu 0 libcctbx0 (>= 2026.4+ds2+~3.28.0+ds1)" >> debian/libcctbx0/DEBIAN/shlibs echo "libdxtbxspotfinder 0 libcctbx0 (>= 2026.4+ds2+~3.28.0+ds1)" >> debian/libcctbx0/DEBIAN/shlibs echo "libiotbx_mtz 0 libcctbx0 (>= 2026.4+ds2+~3.28.0+ds1)" >> debian/libcctbx0/DEBIAN/shlibs echo "libiotbx_pdb 0 libcctbx0 (>= 2026.4+ds2+~3.28.0+ds1)" >> debian/libcctbx0/DEBIAN/shlibs echo "libiotbx_xplor 0 libcctbx0 (>= 2026.4+ds2+~3.28.0+ds1)" >> debian/libcctbx0/DEBIAN/shlibs echo "libmmtbx_masks 0 libcctbx0 (>= 2026.4+ds2+~3.28.0+ds1)" >> debian/libcctbx0/DEBIAN/shlibs echo "libmmtbx_tls 0 libcctbx0 (>= 2026.4+ds2+~3.28.0+ds1)" >> debian/libcctbx0/DEBIAN/shlibs echo "libomptbx 0 libcctbx0 (>= 2026.4+ds2+~3.28.0+ds1)" >> debian/libcctbx0/DEBIAN/shlibs echo "librstbx 0 libcctbx0 (>= 2026.4+ds2+~3.28.0+ds1)" >> debian/libcctbx0/DEBIAN/shlibs echo "libscitbx_boost_python 0 libcctbx0 (>= 2026.4+ds2+~3.28.0+ds1)" >> debian/libcctbx0/DEBIAN/shlibs echo "libscitbx_minpack 0 libcctbx0 (>= 2026.4+ds2+~3.28.0+ds1)" >> debian/libcctbx0/DEBIAN/shlibs echo "libscitbx_slatec 0 libcctbx0 (>= 2026.4+ds2+~3.28.0+ds1)" >> debian/libcctbx0/DEBIAN/shlibs echo "libsmtbx_refinement_constraints 0 libcctbx0 (>= 2026.4+ds2+~3.28.0+ds1)" >> debian/libcctbx0/DEBIAN/shlibs echo "libspotfinder 0 libcctbx0 (>= 2026.4+ds2+~3.28.0+ds1)" >> debian/libcctbx0/DEBIAN/shlibs chmod 0644 -- debian/libcctbx0/DEBIAN/shlibs mv debian/.debhelper/generated/libcctbx0/triggers.new debian/.debhelper/generated/libcctbx0/triggers rm -f debian/libcctbx-dev/DEBIAN/shlibs rm -f debian/python3-cctbx/DEBIAN/shlibs dh_shlibdeps -a -O--buildsystem=pybuild install -m0755 -d debian/libcctbx0/DEBIAN dpkg-shlibdeps -Tdebian/libcctbx0.substvars debian/libcctbx0/usr/lib/x86_64-linux-gnu/libccp4io.so.0.0.1 debian/libcctbx0/usr/lib/x86_64-linux-gnu/libomptbx.so.0.0.1 debian/libcctbx0/usr/lib/x86_64-linux-gnu/librstbx.so.0.0.1 debian/libcctbx0/usr/lib/x86_64-linux-gnu/libiotbx_mtz.so.0.0.1 debian/libcctbx0/usr/lib/x86_64-linux-gnu/libcctbx_sgtbx_asu.so.0.0.1 debian/libcctbx0/usr/lib/x86_64-linux-gnu/libscitbx_boost_python.so.0.0.1 debian/libcctbx0/usr/lib/x86_64-linux-gnu/libsmtbx_refinement_constraints.so.0.0.1 debian/libcctbx0/usr/lib/x86_64-linux-gnu/libmmtbx_masks.so.0.0.1 debian/libcctbx0/usr/lib/x86_64-linux-gnu/libspotfinder.so.0.0.1 debian/libcctbx0/usr/lib/x86_64-linux-gnu/libdxtbxspotfinder.so.0.0.1 debian/libcctbx0/usr/lib/x86_64-linux-gnu/libasymmetric_map.so.0.0.1 debian/libcctbx0/usr/lib/x86_64-linux-gnu/libcbf-private.so.0.0.1 debian/libcctbx0/usr/lib/x86_64-linux-gnu/libiotbx_pdb.so.0.0.1 debian/libcctbx0/usr/lib/x86_64-linux-gnu/libcctbx.so.0.0.1 debian/libcctbx0/usr/lib/x86_64-linux-gnu/libann_adaptor.so.0.0.1 debian/libcctbx0/usr/lib/x86_64-linux-gnu/libmmtbx_tls.so.0.0.1 debian/libcctbx0/usr/lib/x86_64-linux-gnu/libiotbx_xplor.so.0.0.1 debian/libcctbx0/usr/lib/x86_64-linux-gnu/libscitbx_minpack.so.0.0.1 debian/libcctbx0/usr/lib/x86_64-linux-gnu/libscitbx_slatec.so.0.0.1 dpkg-shlibdeps: warning: symbol PyObject_IsTrue used by debian/libcctbx0/usr/lib/x86_64-linux-gnu/libscitbx_boost_python.so.0.0.1 found in none of the libraries dpkg-shlibdeps: warning: symbol PyExc_IndexError used by debian/libcctbx0/usr/lib/x86_64-linux-gnu/libscitbx_boost_python.so.0.0.1 found in none of the libraries dpkg-shlibdeps: warning: symbol PyExc_RuntimeError used by debian/libcctbx0/usr/lib/x86_64-linux-gnu/libscitbx_boost_python.so.0.0.1 found in none of the libraries dpkg-shlibdeps: warning: symbol PyErr_SetString used by debian/libcctbx0/usr/lib/x86_64-linux-gnu/libscitbx_boost_python.so.0.0.1 found in none of the libraries dpkg-shlibdeps: warning: symbol PyObject_CallFunction used by debian/libcctbx0/usr/lib/x86_64-linux-gnu/libscitbx_boost_python.so.0.0.1 found in none of the libraries dpkg-shlibdeps: warning: symbol _Py_Dealloc used by debian/libcctbx0/usr/lib/x86_64-linux-gnu/libscitbx_boost_python.so.0.0.1 found in none of the libraries dpkg-shlibdeps: warning: symbol _Py_NoneStruct used by debian/libcctbx0/usr/lib/x86_64-linux-gnu/libscitbx_boost_python.so.0.0.1 found in none of the libraries dpkg-shlibdeps: warning: symbol PyRange_Type used by debian/libcctbx0/usr/lib/x86_64-linux-gnu/libscitbx_boost_python.so.0.0.1 found in none of the libraries dpkg-shlibdeps: warning: symbol PyImport_ImportModule used by debian/libcctbx0/usr/lib/x86_64-linux-gnu/libscitbx_boost_python.so.0.0.1 found in none of the libraries install -m0755 -d debian/python3-cctbx/DEBIAN dpkg-shlibdeps -Tdebian/python3-cctbx.substvars debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_restraints_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_neutron_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_array_family_flex_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_geometry_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_suffixtree_shared_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_imageset_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_metric_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_scalepack_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/omptbx_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_masking_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_breadth_first_search_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_util_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_tuple_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_dxtbx_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_python_meta_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_henke_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dtrek_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_graph_structure_comparison_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_diffraction_fastbragg_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_symmetry_search_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ramachandran_restraints_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/determine_unit_cell_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_array_family_shared_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_shared_types_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_iso_surface_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lstbx_normal_equations_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_hierarchy_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_den_restraints_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ncs_cartesian_restraints_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_scaling_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_detectors_bruker_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_covariance_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/fable_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_python_meta_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dsn6_map_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_ab_initio_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ncs_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_henke_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_math_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_french_wilson_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_xplor_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_chemical_elements_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_symmetry_constraints_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/std_pair_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bpcx_detector_model_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_map_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_minpack_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_mosaic_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_xray_observations_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_xplor_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/annlib_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_gl_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_secondary_structure_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_symmetry_search_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_statistics_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/determine_unit_cell_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_viewer_utils_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_rotamer_fit_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_den_restraints_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bandpass_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_model_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_decompose_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_constraints_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_chemical_elements_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_covalent_radii_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_dssp_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ncs_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_multipolar_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lbfgs_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_graphics_utils_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_f_model_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_constraints_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_metric_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lbfgsb_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_set_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_probe_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_adp_restraints_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_distltbx_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_r3_utils_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_fftpack_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_fftpack_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_model_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_dynamics_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_graphics_utils_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_python_hybrid_times_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_python_hybrid_times_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_rsr_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_optional_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_orientation_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_maptbx_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_f_model_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_bulk_solvent_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_math_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_rsr_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_emma_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_array_family_flex_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_masking_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_detectors_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_minpack_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_sphere_surface_sampling_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_array_family_shared_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_breadth_first_search_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_crystal_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_wavelengths_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_wavelengths_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_r3_utils_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_adp_restraints_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_uctbx_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_stl_map_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_python_streambuf_test_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_optimise_amplitudes_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_tiny_pse_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_least_squares_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_maptbx_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ramachandran_restraints_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_rigid_body_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_cif_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_util_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_fp_fdp_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_maptbx_bcr_bcr_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_sgtbx_asu_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_structure_factors_direct_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_fonts_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_wigner_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_random_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_detectors_bruker_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_asa_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_pair_interaction_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_mtz_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reduce_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_building_loop_closure_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_emma_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_scaling_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_hydrogens_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_masks_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reference_coordinate_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_shelx_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lbfgsb_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_map_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_adptbx_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_dmtbx_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_symmetry_constraints_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_maximum_clique_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_masks_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_adptbx_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_rigid_body_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simage_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cma_es_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_clustering_algorithm_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_fonts_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_gl_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_rational_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_tuple_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_attenuation_coefficient_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_decompose_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_alignment_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_sparse_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_flumpy.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_anharmonic_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_suffixtree_single_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_utility_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_min_cut_max_flow_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_math_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_tiny_pse_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_geometry_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_xray_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_least_squares_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_covariance_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_building_loop_closure_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/fable_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_integration_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reference_coordinate_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_linalg_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_flumpy.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/annlib_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_glu_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_glmtbx_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_xray_scattering_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cma_es_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_linalg_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_array_family_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_shared_types_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_dynamics_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_sgtbx_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_primitive_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_ab_initio_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_cif_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_indexing_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_clash_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_array_family_flex_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_asymmetric_map_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_mosaic_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_utils_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_suffixtree_single_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_structure_factors_direct_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_indexing_api_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_xray_observations_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simulation_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_french_wilson_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_boost_thread_test_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_pair_interaction_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_clash_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_viewer_utils_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ncs_cartesian_restraints_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_hierarchy_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/ccp4io_adaptbx_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_utils_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_wildcard_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/regression_test_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_format_nexus_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_anharmonic_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_hough_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_scalepack_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_mtz_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_graph_structure_comparison_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_masks_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_optimise_amplitudes_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_detectors_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simulation_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_geometry_restraints_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_vector_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_cubicle_neighbors_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_array_family_flex_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_sasaki_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_suffixtree_shared_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_distltbx_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_sgtbx_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/omptbx_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_statistics_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_ccp4_map_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_maximum_clique_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_multipolar_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_hydrogens_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_glmtbx_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_sgtbx_asu_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_utils_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_translation_search_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_icsd_radii_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bpcx_detector_model_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_max_lik_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_utils_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_hough_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_alignment_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_xray_scattering_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_iso_surface_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_geometry_restraints_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_diffraction_fastbragg_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_xray_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_masks_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_merging_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/regression_test_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_shelx_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_validation_ramachandran_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_crystal_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_sparse_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_array_family_flex_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_orientation_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_restraints_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cbflib_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/std_pair_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_utility_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_optional_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simage_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_cubicle_neighbors_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dsn6_map_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/ccp4io_adaptbx_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_attenuation_coefficient_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lstbx_normal_equations_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_fp_fdp_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_format_nexus_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_miller_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_probe_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_wigner_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_translation_search_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_secondary_structure_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_indexing_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_ccp4_map_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_random_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dtrek_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_vector_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_sasaki_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_dxtbx_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_icsd_radii_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_merging_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_format_image_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_glu_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_integration_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lbfgs_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_array_family_flex_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bandpass_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_primitive_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_wildcard_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_array_family_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_quadrics_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reduce_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cbflib_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_miller_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_set_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_min_cut_max_flow_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_dmtbx_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_clustering_algorithm_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_neutron_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_rational_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_covalent_radii_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_format_image_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_quadrics_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_bulk_solvent_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_boost_thread_test_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_rotamer_fit_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_connected_component_algorithm_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_sphere_surface_sampling_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_asymmetric_map_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_python_streambuf_test_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_stl_map_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_connected_component_algorithm_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_dssp_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_maptbx_bcr_bcr_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_asa_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_imageset_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_validation_ramachandran_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_array_family_flex_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_max_lik_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_array_family_flex_ext.cpython-314-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_indexing_api_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_uctbx_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_math_ext.cpython-313-x86_64-linux-gnu.so debian/python3-cctbx/usr/lib/cctbx/python3.13/smtbx/refinement/constraints/tests/tst_special_position debian/python3-cctbx/usr/lib/cctbx/python3.13/smtbx/refinement/constraints/tests/tst_geometrical_hydrogens debian/python3-cctbx/usr/lib/cctbx/python3.13/smtbx/refinement/constraints/tests/tst_reparametrisation debian/python3-cctbx/usr/lib/cctbx/python3.13/boost_adaptbx/tests/tst_optional_copy debian/python3-cctbx/usr/lib/cctbx/python3.13/iotbx/pdb/hybrid_36_fem debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/lbfgs/tst_lbfgs debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/matrix/tests/tst_householder debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/matrix/tests/tst_cholesky debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/matrix/tests/tst_svd debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/matrix/tests/tst_givens debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/serialization/tst_base_256 debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_mat3 debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_af_4 debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_af_2 debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_af_3 debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_accessors debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_unsigned_float_arithmetic debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_rectangular_full_packed debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_sym_mat3 debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_optional_copy debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_vec3 debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_ref_matrix_facet debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_af_1 debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/array_family/tst_af_5 debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/math/tests/tst debian/python3-cctbx/usr/lib/cctbx/python3.13/scitbx/error/tst_error debian/python3-cctbx/usr/lib/cctbx/python3.14/smtbx/refinement/constraints/tests/tst_special_position debian/python3-cctbx/usr/lib/cctbx/python3.14/smtbx/refinement/constraints/tests/tst_geometrical_hydrogens debian/python3-cctbx/usr/lib/cctbx/python3.14/smtbx/refinement/constraints/tests/tst_reparametrisation debian/python3-cctbx/usr/lib/cctbx/python3.14/boost_adaptbx/tests/tst_optional_copy debian/python3-cctbx/usr/lib/cctbx/python3.14/iotbx/pdb/hybrid_36_fem debian/python3-cctbx/usr/lib/cctbx/python3.14/scitbx/lbfgs/tst_lbfgs debian/python3-cctbx/usr/lib/cctbx/python3.14/scitbx/matrix/tests/tst_householder debian/python3-cctbx/usr/lib/cctbx/python3.14/scitbx/matrix/tests/tst_cholesky debian/python3-cctbx/usr/lib/cctbx/python3.14/scitbx/matrix/tests/tst_svd debian/python3-cctbx/usr/lib/cctbx/python3.14/scitbx/matrix/tests/tst_givens debian/python3-cctbx/usr/lib/cctbx/python3.14/scitbx/serialization/tst_base_256 debian/python3-cctbx/usr/lib/cctbx/python3.14/scitbx/array_family/tst_mat3 debian/python3-cctbx/usr/lib/cctbx/python3.14/scitbx/array_family/tst_af_4 debian/python3-cctbx/usr/lib/cctbx/python3.14/scitbx/array_family/tst_af_2 debian/python3-cctbx/usr/lib/cctbx/python3.14/scitbx/array_family/tst_af_3 debian/python3-cctbx/usr/lib/cctbx/python3.14/scitbx/array_family/tst_accessors debian/python3-cctbx/usr/lib/cctbx/python3.14/scitbx/array_family/tst_unsigned_float_arithmetic debian/python3-cctbx/usr/lib/cctbx/python3.14/scitbx/array_family/tst_rectangular_full_packed debian/python3-cctbx/usr/lib/cctbx/python3.14/scitbx/array_family/tst_sym_mat3 debian/python3-cctbx/usr/lib/cctbx/python3.14/scitbx/array_family/tst_optional_copy debian/python3-cctbx/usr/lib/cctbx/python3.14/scitbx/array_family/tst_vec3 debian/python3-cctbx/usr/lib/cctbx/python3.14/scitbx/array_family/tst_ref_matrix_facet debian/python3-cctbx/usr/lib/cctbx/python3.14/scitbx/array_family/tst_af_1 debian/python3-cctbx/usr/lib/cctbx/python3.14/scitbx/array_family/tst_af_5 debian/python3-cctbx/usr/lib/cctbx/python3.14/scitbx/math/tests/tst debian/python3-cctbx/usr/lib/cctbx/python3.14/scitbx/error/tst_error debian/python3-cctbx/usr/bin/cctbx.find_distances debian/python3-cctbx/usr/bin/cctbx.lattice_symmetry debian/python3-cctbx/usr/bin/cctbx.convert_ccp4_symop_lib debian/python3-cctbx/usr/bin/cctbx.sys_abs_equiv_space_groups debian/python3-cctbx/usr/bin/cctbx_blobs debian/python3-cctbx/usr/bin/cctbx.sym_equiv_sites debian/python3-cctbx/usr/bin/cbflib.tst_memory debian/python3-cctbx/usr/bin/cctbx.getting_started dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simulation_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it is probably a plugin dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_sgtbx_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyObject_GetIter: it is probably a plugin dpkg-shlibdeps: warning: 27 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_structure_factors_direct_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it is probably a plugin dpkg-shlibdeps: warning: 10 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_rotamer_fit_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it is probably a plugin dpkg-shlibdeps: warning: 12 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_geometry_restraints_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyObject_Size: it is probably a plugin dpkg-shlibdeps: warning: 29 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_crystal_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_Type: it is probably a plugin dpkg-shlibdeps: warning: 28 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_hough_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it is probably a plugin dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_mtz_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyObject_HasAttrString: it is probably a plugin dpkg-shlibdeps: warning: 20 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_mosaic_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_Type: it is probably a plugin dpkg-shlibdeps: warning: 10 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_integration_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it is probably a plugin dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_shared_types_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it is probably a plugin dpkg-shlibdeps: warning: 4 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_python_streambuf_test_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it is probably a plugin dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/annlib_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyErr_SetString: it is probably a plugin dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_indexing_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it is probably a plugin dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_linalg_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_Type: it is probably a plugin dpkg-shlibdeps: warning: 12 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_dynamics_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it is probably a plugin dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_xplor_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it is probably a plugin dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_optional_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it is probably a plugin dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_maximum_clique_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromUnsignedLong: it is probably a plugin dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_math_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_New: it is probably a plugin dpkg-shlibdeps: warning: 17 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_suffixtree_single_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyExc_StopIteration: it is probably a plugin dpkg-shlibdeps: warning: 14 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cbflib_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it is probably a plugin dpkg-shlibdeps: warning: 10 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_constraints_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it is probably a plugin dpkg-shlibdeps: warning: 30 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_map_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it is probably a plugin dpkg-shlibdeps: warning: 20 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_attenuation_coefficient_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it is probably a plugin dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lbfgs_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromUnsignedLong: it is probably a plugin dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_indexing_api_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it is probably a plugin dpkg-shlibdeps: warning: 9 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_quadrics_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyErr_Occurred: it is probably a plugin dpkg-shlibdeps: warning: 20 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_masks_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it is probably a plugin dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ncs_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it is probably a plugin dpkg-shlibdeps: warning: 13 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_iso_surface_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it is probably a plugin dpkg-shlibdeps: warning: 4 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_shelx_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it is probably a plugin dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_boost_thread_test_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it is probably a plugin dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_glu_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it is probably a plugin dpkg-shlibdeps: warning: 12 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_rsr_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyErr_Occurred: it is probably a plugin dpkg-shlibdeps: warning: 10 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_pair_interaction_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_Type: it is probably a plugin dpkg-shlibdeps: warning: 14 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_util_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyErr_Clear: it is probably a plugin dpkg-shlibdeps: warning: 18 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_sgtbx_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it is probably a plugin dpkg-shlibdeps: warning: 27 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_array_family_flex_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol _PyBytes_Resize: it is probably a plugin dpkg-shlibdeps: warning: 30 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cbflib_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it is probably a plugin dpkg-shlibdeps: warning: 10 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_multipolar_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it is probably a plugin dpkg-shlibdeps: warning: 1 similar warning has been skipped (use -v to see it) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_imageset_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it is probably a plugin dpkg-shlibdeps: warning: 21 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_gl_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyUnicode_Type: it is probably a plugin dpkg-shlibdeps: warning: 11 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_primitive_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it is probably a plugin dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_wavelengths_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it is probably a plugin dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_hierarchy_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyErr_Occurred: it is probably a plugin dpkg-shlibdeps: warning: 32 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lstbx_normal_equations_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_Type: it is probably a plugin dpkg-shlibdeps: warning: 10 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_fftpack_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromUnsignedLong: it is probably a plugin dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_secondary_structure_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it is probably a plugin dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_xray_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it is probably a plugin dpkg-shlibdeps: warning: 28 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_utils_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_Type: it is probably a plugin dpkg-shlibdeps: warning: 17 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_wildcard_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it is probably a plugin dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_metric_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it is probably a plugin dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_chemical_elements_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it is probably a plugin dpkg-shlibdeps: warning: 4 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_symmetry_constraints_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it is probably a plugin dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_viewer_utils_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it is probably a plugin dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reduce_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyExc_IndexError: it is probably a plugin dpkg-shlibdeps: warning: 29 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_merging_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it is probably a plugin dpkg-shlibdeps: warning: 1 similar warning has been skipped (use -v to see it) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_indexing_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it is probably a plugin dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_New: it is probably a plugin dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_shelx_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it is probably a plugin dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/ccp4io_adaptbx_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it is probably a plugin dpkg-shlibdeps: warning: 16 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_geometry_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it is probably a plugin dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_covalent_radii_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it is probably a plugin dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_masking_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it is probably a plugin dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 from: /lib64/ld-linux-x86-64.so.2 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 to: /lib64/ld-linux-x86-64.so.2.usr-is-merged dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_flumpy.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_NotImplementedStruct: it is probably a plugin dpkg-shlibdeps: warning: 136 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromUnsignedLong: it is probably a plugin dpkg-shlibdeps: warning: 13 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_scaling_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it is probably a plugin dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_miller_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it is probably a plugin dpkg-shlibdeps: warning: 25 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_merging_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it is probably a plugin dpkg-shlibdeps: warning: 1 similar warning has been skipped (use -v to see it) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_random_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it is probably a plugin dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_glmtbx_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it is probably a plugin dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_clash_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it is probably a plugin dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_rigid_body_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it is probably a plugin dpkg-shlibdeps: warning: 14 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_alignment_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it is probably a plugin dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_detectors_bruker_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it is probably a plugin dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_ccp4_map_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyErr_SetString: it is probably a plugin dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_scaling_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it is probably a plugin dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_maptbx_bcr_bcr_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it is probably a plugin dpkg-shlibdeps: warning: 13 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_r3_utils_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it is probably a plugin dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_maptbx_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it is probably a plugin dpkg-shlibdeps: warning: 14 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_glmtbx_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it is probably a plugin dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_bulk_solvent_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it is probably a plugin dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/determine_unit_cell_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it is probably a plugin dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_array_family_flex_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it is probably a plugin dpkg-shlibdeps: warning: 51 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ramachandran_restraints_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_GetItem: it is probably a plugin dpkg-shlibdeps: warning: 24 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_adptbx_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyObject_HasAttrString: it is probably a plugin dpkg-shlibdeps: warning: 19 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_sphere_surface_sampling_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it is probably a plugin dpkg-shlibdeps: warning: 9 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_glu_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it is probably a plugin dpkg-shlibdeps: warning: 12 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_neutron_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it is probably a plugin dpkg-shlibdeps: warning: 10 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_util_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyIter_Next: it is probably a plugin dpkg-shlibdeps: warning: 18 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_symmetry_search_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it is probably a plugin dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_minpack_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it is probably a plugin dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_maximum_clique_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyObject_CallFunction: it is probably a plugin dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromUnsignedLong: it is probably a plugin dpkg-shlibdeps: warning: 13 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cma_es_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it is probably a plugin dpkg-shlibdeps: warning: 4 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_scalepack_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it is probably a plugin dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_icsd_radii_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it is probably a plugin dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_masks_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it is probably a plugin dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_python_hybrid_times_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it is probably a plugin dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_tuple_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromLong: it is probably a plugin dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_diffraction_fastbragg_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it is probably a plugin dpkg-shlibdeps: warning: 9 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_cubicle_neighbors_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it is probably a plugin dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_sphere_surface_sampling_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it is probably a plugin dpkg-shlibdeps: warning: 9 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bpcx_detector_model_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it is probably a plugin dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_detectors_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromUnsignedLong: it is probably a plugin dpkg-shlibdeps: warning: 9 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_min_cut_max_flow_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it is probably a plugin dpkg-shlibdeps: warning: 10 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_format_image_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyList_Type: it is probably a plugin dpkg-shlibdeps: warning: 23 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_array_family_flex_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyObject_HasAttrString: it is probably a plugin dpkg-shlibdeps: warning: 17 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_sgtbx_asu_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it is probably a plugin dpkg-shlibdeps: warning: 18 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_tiny_pse_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it is probably a plugin dpkg-shlibdeps: warning: 9 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_math_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyComplex_FromDoubles: it is probably a plugin dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_model_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromLong: it is probably a plugin dpkg-shlibdeps: warning: 34 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_utils_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyObject_Size: it is probably a plugin dpkg-shlibdeps: warning: 17 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_masking_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it is probably a plugin dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_covariance_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it is probably a plugin dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/omptbx_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it is probably a plugin dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_array_family_flex_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyErr_Clear: it is probably a plugin dpkg-shlibdeps: warning: 24 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dsn6_map_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it is probably a plugin dpkg-shlibdeps: warning: 1 similar warning has been skipped (use -v to see it) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_least_squares_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it is probably a plugin dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_graphics_utils_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_Type: it is probably a plugin dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_format_nexus_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyObject_Size: it is probably a plugin dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_sasaki_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it is probably a plugin dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/fable_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it is probably a plugin dpkg-shlibdeps: warning: 12 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_utility_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it is probably a plugin dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_henke_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyExc_StopIteration: it is probably a plugin dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_xray_scattering_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyUnicode_Type: it is probably a plugin dpkg-shlibdeps: warning: 13 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_rigid_body_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_Type: it is probably a plugin dpkg-shlibdeps: warning: 14 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_python_hybrid_times_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it is probably a plugin dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_sgtbx_asu_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyUnicode_Type: it is probably a plugin dpkg-shlibdeps: warning: 18 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_quadrics_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyExc_IndexError: it is probably a plugin dpkg-shlibdeps: warning: 20 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bandpass_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it is probably a plugin dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_dssp_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it is probably a plugin dpkg-shlibdeps: warning: 2 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyBytes_FromStringAndSize: it is probably a plugin dpkg-shlibdeps: warning: 4 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_adp_restraints_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyIter_Check: it is probably a plugin dpkg-shlibdeps: warning: 22 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_alignment_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it is probably a plugin dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_french_wilson_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it is probably a plugin dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simage_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it is probably a plugin dpkg-shlibdeps: warning: 14 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cma_es_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it is probably a plugin dpkg-shlibdeps: warning: 4 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_connected_component_algorithm_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it is probably a plugin dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_building_loop_closure_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it is probably a plugin dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_vector_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it is probably a plugin dpkg-shlibdeps: warning: 19 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/ccp4io_adaptbx_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_Type: it is probably a plugin dpkg-shlibdeps: warning: 16 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_minpack_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromLong: it is probably a plugin dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_detectors_bruker_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it is probably a plugin dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_statistics_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it is probably a plugin dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_tiny_pse_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyUnicode_Type: it is probably a plugin dpkg-shlibdeps: warning: 9 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_format_nexus_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyObject_IsInstance: it is probably a plugin dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_anharmonic_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it is probably a plugin dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/regression_test_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromLong: it is probably a plugin dpkg-shlibdeps: warning: 13 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dtrek_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it is probably a plugin dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_f_model_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyRange_Type: it is probably a plugin dpkg-shlibdeps: warning: 15 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_uctbx_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it is probably a plugin dpkg-shlibdeps: warning: 15 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_shared_types_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromLong: it is probably a plugin dpkg-shlibdeps: warning: 4 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_detectors_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it is probably a plugin dpkg-shlibdeps: warning: 9 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_sasaki_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyErr_SetString: it is probably a plugin dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_emma_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyErr_SetString: it is probably a plugin dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_clustering_algorithm_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyDict_Type: it is probably a plugin dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_symmetry_search_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it is probably a plugin dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_primitive_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it is probably a plugin dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_tuple_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromLong: it is probably a plugin dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_cif_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_GetItem: it is probably a plugin dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_optimise_amplitudes_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyObject_Size: it is probably a plugin dpkg-shlibdeps: warning: 11 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_anharmonic_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it is probably a plugin dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_masks_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it is probably a plugin dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_bulk_solvent_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it is probably a plugin dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_decompose_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it is probably a plugin dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_icsd_radii_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it is probably a plugin dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_python_meta_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromUnsignedLong: it is probably a plugin dpkg-shlibdeps: warning: 25 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_asymmetric_map_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it is probably a plugin dpkg-shlibdeps: warning: 1 similar warning has been skipped (use -v to see it) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_set_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyObject_HasAttrString: it is probably a plugin dpkg-shlibdeps: warning: 16 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_probe_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it is probably a plugin dpkg-shlibdeps: warning: 23 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_restraints_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it is probably a plugin dpkg-shlibdeps: warning: 10 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_stl_map_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyObject_GetIter: it is probably a plugin dpkg-shlibdeps: warning: 16 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_xray_observations_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it is probably a plugin dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_r3_utils_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it is probably a plugin dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_henke_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyErr_SetString: it is probably a plugin dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_wigner_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_Type: it is probably a plugin dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_covalent_radii_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyUnicode_Type: it is probably a plugin dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_orientation_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it is probably a plugin dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_pair_interaction_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_Type: it is probably a plugin dpkg-shlibdeps: warning: 14 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_cubicle_neighbors_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it is probably a plugin dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_breadth_first_search_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it is probably a plugin dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_dxtbx_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it is probably a plugin dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_array_family_flex_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyIter_Next: it is probably a plugin dpkg-shlibdeps: warning: 24 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_statistics_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it is probably a plugin dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_clash_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it is probably a plugin dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_stl_map_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyErr_Occurred: it is probably a plugin dpkg-shlibdeps: warning: 16 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_flumpy.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyUnicode_FromString: it is probably a plugin dpkg-shlibdeps: warning: 136 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simulation_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it is probably a plugin dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_translation_search_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it is probably a plugin dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/omptbx_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromLong: it is probably a plugin dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_hierarchy_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyRange_Type: it is probably a plugin dpkg-shlibdeps: warning: 32 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_array_family_flex_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyExc_TypeError: it is probably a plugin dpkg-shlibdeps: warning: 17 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_covariance_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it is probably a plugin dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_random_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it is probably a plugin dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_optimise_amplitudes_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it is probably a plugin dpkg-shlibdeps: warning: 11 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_dmtbx_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyRange_Type: it is probably a plugin dpkg-shlibdeps: warning: 14 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it is probably a plugin dpkg-shlibdeps: warning: 4 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_french_wilson_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it is probably a plugin dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ncs_cartesian_restraints_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it is probably a plugin dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_sparse_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_Type: it is probably a plugin dpkg-shlibdeps: warning: 23 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_python_streambuf_test_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it is probably a plugin dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/fable_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it is probably a plugin dpkg-shlibdeps: warning: 12 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_hydrogens_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromUnsignedLong: it is probably a plugin dpkg-shlibdeps: warning: 15 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_decompose_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it is probably a plugin dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_graph_structure_comparison_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromUnsignedLong: it is probably a plugin dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_rational_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it is probably a plugin dpkg-shlibdeps: warning: 12 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/std_pair_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it is probably a plugin dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_graph_structure_comparison_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it is probably a plugin dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_utility_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyDict_Type: it is probably a plugin dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_set_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyRange_Type: it is probably a plugin dpkg-shlibdeps: warning: 16 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_distltbx_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it is probably a plugin dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_model_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyIter_Next: it is probably a plugin dpkg-shlibdeps: warning: 34 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_emma_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it is probably a plugin dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bpcx_detector_model_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_Type: it is probably a plugin dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/std_pair_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it is probably a plugin dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_mosaic_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it is probably a plugin dpkg-shlibdeps: warning: 10 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_constraints_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyExc_StopIteration: it is probably a plugin dpkg-shlibdeps: warning: 30 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_dmtbx_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyIter_Check: it is probably a plugin dpkg-shlibdeps: warning: 14 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_suffixtree_shared_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it is probably a plugin dpkg-shlibdeps: warning: 4 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it is probably a plugin dpkg-shlibdeps: warning: 14 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_wigner_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it is probably a plugin dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_rational_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it is probably a plugin dpkg-shlibdeps: warning: 12 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reference_coordinate_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it is probably a plugin dpkg-shlibdeps: warning: 21 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_gl_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it is probably a plugin dpkg-shlibdeps: warning: 11 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_asa_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it is probably a plugin dpkg-shlibdeps: warning: 14 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_neutron_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyUnicode_Type: it is probably a plugin dpkg-shlibdeps: warning: 10 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_max_lik_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it is probably a plugin dpkg-shlibdeps: warning: 11 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_chemical_elements_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it is probably a plugin dpkg-shlibdeps: warning: 4 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_geometry_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it is probably a plugin dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_adp_restraints_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyObject_Size: it is probably a plugin dpkg-shlibdeps: warning: 22 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_validation_ramachandran_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_Type: it is probably a plugin dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_uctbx_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromUnsignedLong: it is probably a plugin dpkg-shlibdeps: warning: 15 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_adptbx_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyIter_Next: it is probably a plugin dpkg-shlibdeps: warning: 19 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_miller_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromUnsignedLong: it is probably a plugin dpkg-shlibdeps: warning: 25 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_breadth_first_search_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromUnsignedLong: it is probably a plugin dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_Type: it is probably a plugin dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_format_image_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it is probably a plugin dpkg-shlibdeps: warning: 23 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_wavelengths_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyUnicode_Type: it is probably a plugin dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/determine_unit_cell_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it is probably a plugin dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_dynamics_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it is probably a plugin dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_dssp_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it is probably a plugin dpkg-shlibdeps: warning: 2 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyErr_Occurred: it is probably a plugin dpkg-shlibdeps: warning: 13 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_scalepack_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it is probably a plugin dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_iso_surface_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it is probably a plugin dpkg-shlibdeps: warning: 4 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_crystal_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyExc_StopIteration: it is probably a plugin dpkg-shlibdeps: warning: 28 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lstbx_normal_equations_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyErr_SetString: it is probably a plugin dpkg-shlibdeps: warning: 10 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_suffixtree_shared_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it is probably a plugin dpkg-shlibdeps: warning: 4 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_symmetry_constraints_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it is probably a plugin dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_probe_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it is probably a plugin dpkg-shlibdeps: warning: 23 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyList_Type: it is probably a plugin dpkg-shlibdeps: warning: 13 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_xray_observations_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it is probably a plugin dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_xray_scattering_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it is probably a plugin dpkg-shlibdeps: warning: 13 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_max_lik_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it is probably a plugin dpkg-shlibdeps: warning: 11 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_f_model_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyObject_HasAttrString: it is probably a plugin dpkg-shlibdeps: warning: 15 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_math_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyExc_StopIteration: it is probably a plugin dpkg-shlibdeps: warning: 17 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_fftpack_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromUnsignedLong: it is probably a plugin dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_boost_thread_test_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it is probably a plugin dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_asa_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_Type: it is probably a plugin dpkg-shlibdeps: warning: 14 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dsn6_map_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it is probably a plugin dpkg-shlibdeps: warning: 1 similar warning has been skipped (use -v to see it) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_utils_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it is probably a plugin dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_fonts_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it is probably a plugin dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_distltbx_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it is probably a plugin dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_dxtbx_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it is probably a plugin dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_vector_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it is probably a plugin dpkg-shlibdeps: warning: 19 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_xplor_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it is probably a plugin dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_maptbx_bcr_bcr_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_Type: it is probably a plugin dpkg-shlibdeps: warning: 13 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_metric_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it is probably a plugin dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bandpass_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it is probably a plugin dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/regression_test_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyObject_Size: it is probably a plugin dpkg-shlibdeps: warning: 13 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_python_meta_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyExc_OverflowError: it is probably a plugin dpkg-shlibdeps: warning: 25 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_suffixtree_single_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyErr_SetString: it is probably a plugin dpkg-shlibdeps: warning: 14 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_validation_ramachandran_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it is probably a plugin dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_diffraction_fastbragg_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it is probably a plugin dpkg-shlibdeps: warning: 9 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_restraints_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromUnsignedLong: it is probably a plugin dpkg-shlibdeps: warning: 10 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_rotamer_fit_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyList_Type: it is probably a plugin dpkg-shlibdeps: warning: 12 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_ab_initio_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it is probably a plugin dpkg-shlibdeps: warning: 1 similar warning has been skipped (use -v to see it) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_viewer_utils_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromUnsignedLong: it is probably a plugin dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ncs_cartesian_restraints_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_Type: it is probably a plugin dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ramachandran_restraints_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyIter_Check: it is probably a plugin dpkg-shlibdeps: warning: 24 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_den_restraints_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_GetItem: it is probably a plugin dpkg-shlibdeps: warning: 20 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_ab_initio_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it is probably a plugin dpkg-shlibdeps: warning: 1 similar warning has been skipped (use -v to see it) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_math_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromLong: it is probably a plugin dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/annlib_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyErr_SetString: it is probably a plugin dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_orientation_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it is probably a plugin dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_masks_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it is probably a plugin dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_map_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyExc_KeyError: it is probably a plugin dpkg-shlibdeps: warning: 20 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_building_loop_closure_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromLong: it is probably a plugin dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_attenuation_coefficient_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it is probably a plugin dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simage_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyErr_SetString: it is probably a plugin dpkg-shlibdeps: warning: 14 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ncs_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_Type: it is probably a plugin dpkg-shlibdeps: warning: 13 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_array_family_flex_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it is probably a plugin dpkg-shlibdeps: warning: 30 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dtrek_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it is probably a plugin dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_fonts_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it is probably a plugin dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_maptbx_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_Type: it is probably a plugin dpkg-shlibdeps: warning: 14 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_utils_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it is probably a plugin dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_optional_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it is probably a plugin dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_mtz_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_GetItem: it is probably a plugin dpkg-shlibdeps: warning: 20 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reduce_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it is probably a plugin dpkg-shlibdeps: warning: 29 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lbfgsb_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it is probably a plugin dpkg-shlibdeps: warning: 9 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_min_cut_max_flow_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_Type: it is probably a plugin dpkg-shlibdeps: warning: 10 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_array_family_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it is probably a plugin dpkg-shlibdeps: warning: 4 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_sparse_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyDict_Type: it is probably a plugin dpkg-shlibdeps: warning: 23 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_indexing_api_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it is probably a plugin dpkg-shlibdeps: warning: 9 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_rsr_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyErr_Occurred: it is probably a plugin dpkg-shlibdeps: warning: 10 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_fp_fdp_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it is probably a plugin dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_hydrogens_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it is probably a plugin dpkg-shlibdeps: warning: 15 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_connected_component_algorithm_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it is probably a plugin dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_clustering_algorithm_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it is probably a plugin dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_xray_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it is probably a plugin dpkg-shlibdeps: warning: 28 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lbfgs_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it is probably a plugin dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_array_family_shared_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyExc_IndexError: it is probably a plugin dpkg-shlibdeps: warning: 16 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_secondary_structure_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it is probably a plugin dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lbfgsb_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromLong: it is probably a plugin dpkg-shlibdeps: warning: 9 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_cif_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_GetItem: it is probably a plugin dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_structure_factors_direct_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyErr_SetString: it is probably a plugin dpkg-shlibdeps: warning: 10 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reference_coordinate_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PySlice_Type: it is probably a plugin dpkg-shlibdeps: warning: 21 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_asymmetric_map_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it is probably a plugin dpkg-shlibdeps: warning: 1 similar warning has been skipped (use -v to see it) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_least_squares_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromLong: it is probably a plugin dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_ccp4_map_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it is probably a plugin dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_geometry_restraints_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it is probably a plugin dpkg-shlibdeps: warning: 29 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_linalg_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it is probably a plugin dpkg-shlibdeps: warning: 12 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_array_family_flex_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyErr_SetString: it is probably a plugin dpkg-shlibdeps: warning: 51 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_fp_fdp_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it is probably a plugin dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_imageset_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_New: it is probably a plugin dpkg-shlibdeps: warning: 21 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_array_family_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it is probably a plugin dpkg-shlibdeps: warning: 4 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_integration_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it is probably a plugin dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_graphics_utils_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_Type: it is probably a plugin dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_wildcard_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it is probably a plugin dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_multipolar_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it is probably a plugin dpkg-shlibdeps: warning: 1 similar warning has been skipped (use -v to see it) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_hough_ext.cpython-314-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it is probably a plugin dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_array_family_shared_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it is probably a plugin dpkg-shlibdeps: warning: 16 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_New: it is probably a plugin dpkg-shlibdeps: warning: 14 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_translation_search_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it is probably a plugin dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_den_restraints_ext.cpython-313-x86_64-linux-gnu.so contains an unresolvable reference to symbol PyObject_HasAttrString: it is probably a plugin dpkg-shlibdeps: warning: 20 other similar warnings have been skipped (use -v to see them all) dh_installdeb -a -O--buildsystem=pybuild install -m0755 -d debian/libcctbx0/DEBIAN install -p -m0644 debian/.debhelper/generated/libcctbx0/triggers debian/libcctbx0/DEBIAN/triggers install -m0755 -d debian/libcctbx-dev/DEBIAN install -m0755 -d debian/python3-cctbx/DEBIAN printf '#!/bin/sh\nset -e\n' > debian/python3-cctbx/DEBIAN/postinst cat debian/python3-cctbx.postinst.debhelper >> debian/python3-cctbx/DEBIAN/postinst chmod 0755 -- debian/python3-cctbx/DEBIAN/postinst printf '#!/bin/sh\nset -e\n' > debian/python3-cctbx/DEBIAN/prerm cat debian/python3-cctbx.prerm.debhelper >> debian/python3-cctbx/DEBIAN/prerm chmod 0755 -- debian/python3-cctbx/DEBIAN/prerm dh_numpy3 -a -O--buildsystem=pybuild dh_numpy3: skipping binary package libcctbx0 which does not depend on the NumPy C ABI dh_numpy3: skipping binary package libcctbx-dev which does not depend on the NumPy C ABI mv debian/python3-cctbx.substvars.new debian/python3-cctbx.substvars dh_gencontrol -a -O--buildsystem=pybuild install -m0755 -d debian/libcctbx-dev/DEBIAN echo misc:Depends= >> debian/libcctbx-dev.substvars echo misc:Pre-Depends= >> debian/libcctbx-dev.substvars dpkg-gencontrol -plibcctbx-dev -ldebian/changelog -Tdebian/libcctbx-dev.substvars -cdebian/control -Pdebian/libcctbx-dev install -m0755 -d debian/libcctbx0/DEBIAN echo misc:Depends= >> debian/libcctbx0.substvars echo misc:Pre-Depends= >> debian/libcctbx0.substvars install -m0755 -d debian/.debhelper/libcctbx0/dbgsym-root/DEBIAN dpkg-gencontrol -plibcctbx0 -ldebian/changelog -Tdebian/libcctbx0.substvars -cdebian/control -Pdebian/.debhelper/libcctbx0/dbgsym-root -UPre-Depends -URecommends -USuggests -UEnhances -UProvides -UEssential -UConflicts -DPriority=optional -UHomepage -UImportant -DAuto-Built-Package=debug-symbols -UProtected -UBuilt-Using -UStatic-Built-Using -DPackage=libcctbx0-dbgsym -DDepends="libcctbx0 (= \${binary:Version})" -DDescription="debug symbols for libcctbx0" -DBuild-Ids="2b82adb6dd72220670992c6c5de7140c1279ae25 3686265389a706435b1c99311ceacdc8bc968b9c 36fbb258d8a77ae80432af30f417a4d025f39f1c 3b87da4c24e4e3b619ed044875ce9e84371428be 3d98530f8862b061037100071735baf6a71478bc 530fc7b15e66391145ef991a7a3fe5ff199a1c51 5c3ab8b916ce7e0e99ca35a49b94cb0cd59036a9 63048f1527f08fa0cf2c36275e7d3c475fe68bfe 7ca0bd25451ba48fb597a5f8d8151125aa887a59 80dca15bd0b6d2ade7b2f427669d978869d49da1 882fa0620972963457cd741ed6fb4bb7177ad421 934a3c37bb5c1f0cb14820215259b18a681aa6ba b42c355a36f79b7952db5692a4fbc4de1ab5b1e7 c102a804649da9bb24a4d66e0c7e8f56848fece7 c58ee244c5ddbc4e6c46dd58d1400a9c3e079cc7 cb220e0972ed8f0f92dda5bcf1ed8e0849002787 cea34231aa75f64697eb2ad5239dcef0576a7699 d35fa913a165a4b47bc42414795d7fcc71b85e5c dcc53ccfb12c5504257e1108dbe244a6a8efe606" -DSection=debug -UMulti-Arch -UReplaces -UBreaks install -m0755 -d debian/python3-cctbx/DEBIAN echo misc:Depends= >> debian/python3-cctbx.substvars echo misc:Pre-Depends= >> debian/python3-cctbx.substvars install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/DEBIAN dpkg-gencontrol -ppython3-cctbx -ldebian/changelog -Tdebian/python3-cctbx.substvars -cdebian/control -Pdebian/.debhelper/python3-cctbx/dbgsym-root -UPre-Depends -URecommends -USuggests -UEnhances -UProvides -UEssential -UConflicts -DPriority=optional -UHomepage -UImportant -DAuto-Built-Package=debug-symbols -UProtected -UBuilt-Using -UStatic-Built-Using -DPackage=python3-cctbx-dbgsym -DDepends="python3-cctbx (= \${binary:Version})" -DDescription="debug symbols for python3-cctbx" -DBuild-Ids="003b179eee4474b75bcd8f433054bf8f85052bb0 00688386b085a9a3757721fd9f511ce29c86b1d8 0132326faa20160ca2ebe5ce25669ac1185f7ab0 01a6f0176f19e01eff1df57198cd1155962b884f 01d8b21ac12e6d5c6c09f8782f3e1d790c5cdd03 020a8ffabb0b907bd0c0fc04fc0abaf039105991 023aa71fb19152e2aff2e912564019207ba62546 024b2d9f64c6556a8803cc467af22b10ef1410be 02d76a88b860bc437f893bf06bd6301982fc837d 03b011084ca8ff0267fea7308d684fcb60f64a50 0464097cd143b2c2f388f24511a3653507770bdf 057a19f31cba4402c2cbbb9fef0bc92d1bd7b9ff 059b9a83a2f549e75496f8b64c4a0dc7a15b688c 07769824d5acc9ad7f07709b42742bc5d9a2257c 086a179379ca7ebb1789e9632fd05d9daadee78e 09008987b2b6dc121af14ff8d98f19f64f0eaae5 09fd76ca79c6f485ff036230191b4ead20b3e265 0aac42d3c523346a227ee17469c713a92abf376f 0acf76b5198aa85b7d21f7bbd54c5fd9799b1326 0b1921104e82c4c2591e142d1f5fed8f24a10584 0c7ce088388c3254176ba89bb562dcc2dd56518a 0e57db115dae4091d5e96d60042c86932e57324c 0f5dc3f4f97fb259c8adf8d18028d9f2260b3dec 0f7e3381f41b8f7b88270035efbcef696283591a 103e36b305018e271e707808f76ed465d65297ed 107eda64e28c10ca7a036144964ef0c887ce061f 1248fd0bc619044135daddee4d467b651f449686 12761214957101fb5c79e8ec943d2dbcbf7e22ba 1359d6cc0fcf118b9f15b2865e1f7552cd616568 14be225bab982fb3b3bb1370003892048e192a6c 15921c4c488fbaacac9d4cedda61178c1052086c 1662af6e9b34e641316bb628aa8b29c7c4263f7d 167c00ec57a895fc2ffed7a0cfbd2d8685824515 1744ed2c829e389777be7f13bf0b1e34695f88cd 177c91135738227fa7e21e15abff5f595a50c08f 18189cf85d81e12317847b4f6db8bf331cdcce6a 18e01f8b5cecee736ebfa07e5190964c11c355ff 1a60999bcbd810bfb36f96b4646cb521f9a1bb4b 1a6aba17e979f8f95cbeafb552e7930408948256 1ac555870914ca25ac9b6bd30e2d455b98e0ef7d 1ad400ea06cfa229aac22abfbc3cf4f1fb32a221 1ba60f37ac6b19eb8a87c5b33340a56068fd5e3e 1d4ed1b05b8cdecfac555a97f4beedc1fdf7d5be 1de8e23abbb988e10b834f06d93e614929338dee 1e36f254f64a2bbf5c2f0e6bd02e2f1a2a3439c3 1e63ed146c5af135f05177d7fa2c4c9b8dfd328d 1eb885895d7a57522958b331fa9a7dfff95a14b7 1f86065dbfcb92ddc1faf6b5b9def1c530491118 206d058722c2774fba48dbbb2b458a263f7e9bef 2158a1af51ad67fc12d94db28fb969b640dab2bc 22c7123f5a1fa9c9ef399d4571a553a9ef7bf8c6 230db2034f57ebbdd15483dac3d171a295197f88 23b9c2c6d7d222804a4232be7e29efeac5e3ee09 23d28d8db14a84e7bb74b1ca148d2d7dbf2eb586 249f9c05d3fcb35ff8df034f1bb4a51114a21f18 26d119e5452bc5abe17d643bd5a178f425e75728 26d2eb44b9c809639724b3aa6ff0016cf7af6ef2 27d4380cc7a141db315687ae185f9e261c124129 28598f609da1050bed5d535991c1d97daacf7630 28b219c8e254ba10f8bd0c2273bfa9349ebb280d 2918e6cd97e75fa43c15533e26452285975d394b 298cabf26839a6bec000e827df321e3c243d6adf 29b3d237bbf0749692cad8b8eb4a3fb198b23bcb 2b401bedac4c3480ec7e7153539288f65afaf721 2ba17c050a1b0b3c6db9557106aead4a3e27d1c3 2ba84ffb9c84b48d68c728c83696183b12485bef 2c5b5e96046ced4fe659c74fd66a8eb0ce682e9d 2d13113a37701db335f0ee85fbab54dfeb3cfe22 2d433b86dbc111ac13481fbacf658ecf651e6cc3 2e490e000b9724da8aaaee8c22717b232e47d6c0 2e7b4d2c163a08010090d3295e1ac1f90d7975f1 2fe53e6bc582a3a4e4936f74d5e7fb5411065c94 308909f1e11ca1bafad0a5296c024ea628c650c0 30b67ed9426af39395eeee188f2514ca9dc355b1 323a221d45b776414cd321b445966e05a50015a5 328e273c10173bc6b7185a4e2d45c251d2163ffb 328e68fc3e80e640b9af205dceaec3f6323a7902 32a95406244c1a0614324ffdc9b5dba7f4d68af4 3398d99f0e3a5c66ab9880be2f3dd0c6e4c6a522 345c2d3b5c1592ddc3093b77bac715c6805cb6bb 346d87e44aedf13ceef38a0c623177221df6a035 3605ff4c804a674daae78c203e0fd2516f19b2ab 368dc9f318206673a525aa43d819d37d189d9bca 36f77adfab484ae67de32c503a58a25523509257 37849e33386730c98b34f7d7db2cb9eb369851e2 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477a3583519e3e019d2d846379bfd122191e9ece 49454975f4529d73d853256487c1b1d68324aad3 49d3552ebab888b3cd00a82467fe916363e4cf0c 4a626d1d372b34068cbbe9fd0223ffdaa5bc24e1 4ba1d726597fd4a08d9046e8041211af4f4e12a1 4bb31da9ddb7a607f3d575552ce256bc599eb160 4c3fbad884640b40ea63227bdecd2dcc6c578bf3 4dc105c4b11068eead0243326540a4a66887f294 4e401ec6a67b380bf4d12d44c26e72a2289c00ef 4e51ef423124887552cb564d0fd54163e6818c8b 4edb061cefdd571912137457deac13b42ac27972 4f15dc0f9160274012cb720bd717ff385471c79a 4f1abb722933b5d514dbf65fefbac4ce856ae02f 500c1cc822baeb364b894fa7b96f4a522ab95d13 504242607a8c55acd55483c109076b61dfe15501 51cea71731315452a06aa528635ceb81373c0f2c 526b9b1cd7f2c59f4d83ba13869622bcdab2467e 52cdebb01a6521eb6c64e9679c561c87f1592e23 52fd32f80ed318680ed67e3bd0ede0dc64071f59 540e645d5a70ece46b925baaab60d81d2e93fcaf 548f19c8f7b50bd0d04c9b649873208c5630b748 553028b96e73bfb133f355d5948ce90ca98af988 554822cefd136053174629c1eec2bae1737265bb 56f3dd27effd6352661ee987f749add76b96e3c7 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f09a0121c29f9cc0a9628b20ff6d6d8f645ad777 f1cc1a0d4eb7c778912f80ab0a61057031476943 f2547acceca465f3302011841bbf83114a8dbeb6 f293ffc115dd1ad29edf760f53fdd2004abb0c17 f509706cc42c4a280f3c394fbd8943c22aead8b0 f6415c80c11d1a4e0a1e731b76717b43abc7eb99 f79ec1735197180f1bcc3113b087f9468c93b37d f8d20b0e0bd06e4c321a802229fd873d54ab784d f8ea66b5254910287e59e3928df42330f75e3c5d f96928a2a7655b66bebb3b32a9c28c18815f5e5d f9ea4e828b93908255c970aa5e23504225baf8a7 fa5a443a4eb313df7710660f506b2bc13b1278a8 fa5b64cd406d4cc77d5d0e33f4aa04d73384c412 fa90df53333e2bfd7fb85c68b09c134b8f16f716 faaf084aef488a3a073b6024da01f24ac2faa65e faf9232b00f627919c1a991c98df127a1e9fdc15 fb4c0074b46b50f36c8060d71bd771ad54cf63fc fbddf55bcaf7d201a3c3630d2239a73d1736d7d6 fc89b4feb5114dcb3ddf09132df98f30d01ebb96 fce5cceb8e5d0a2b91032ca21514e33b70cdce1d ff73ff554d06b514961980a53f0dc3924862bb0c ff94af20714e6bc3407e0a2a86990403f777dc54 ffb29960e12886b514bde8f3dca5e433c0644567" -DSection=debug -UMulti-Arch -UReplaces -UBreaks chmod 0644 -- debian/.debhelper/libcctbx0/dbgsym-root/DEBIAN/control dpkg-gencontrol -plibcctbx0 -ldebian/changelog -Tdebian/libcctbx0.substvars -cdebian/control -Pdebian/libcctbx0 chmod 0644 -- debian/libcctbx-dev/DEBIAN/control chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/DEBIAN/control dpkg-gencontrol -ppython3-cctbx -ldebian/changelog -Tdebian/python3-cctbx.substvars -cdebian/control -Pdebian/python3-cctbx chmod 0644 -- debian/libcctbx0/DEBIAN/control chmod 0644 -- debian/python3-cctbx/DEBIAN/control dh_md5sums -a -O--buildsystem=pybuild install -m0755 -d debian/libcctbx0/DEBIAN install -m0755 -d debian/libcctbx-dev/DEBIAN install -m0755 -d debian/python3-cctbx/DEBIAN cd debian/libcctbx0 >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums cd debian/libcctbx-dev >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums cd debian/python3-cctbx >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums chmod 0644 -- debian/libcctbx0/DEBIAN/md5sums install -m0755 -d debian/.debhelper/libcctbx0/dbgsym-root/DEBIAN cd debian/.debhelper/libcctbx0/dbgsym-root >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums chmod 0644 -- debian/libcctbx-dev/DEBIAN/md5sums chmod 0644 -- debian/.debhelper/libcctbx0/dbgsym-root/DEBIAN/md5sums chmod 0644 -- debian/python3-cctbx/DEBIAN/md5sums install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/DEBIAN cd debian/.debhelper/python3-cctbx/dbgsym-root >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/DEBIAN/md5sums dh_builddeb -a -O--buildsystem=pybuild dpkg-deb --root-owner-group --build debian/libcctbx0 .. dpkg-deb --root-owner-group --build debian/.debhelper/libcctbx0/dbgsym-root .. dpkg-deb --root-owner-group --build debian/python3-cctbx .. dpkg-deb --root-owner-group --build debian/libcctbx-dev .. dpkg-deb: building package 'libcctbx0' in '../libcctbx0_2026.4+ds2+~3.28.0+ds1-2_amd64.deb'. dpkg-deb --root-owner-group --build debian/.debhelper/python3-cctbx/dbgsym-root .. dpkg-deb: building package 'libcctbx-dev' in '../libcctbx-dev_2026.4+ds2+~3.28.0+ds1-2_amd64.deb'. dpkg-deb: building package 'python3-cctbx' in '../python3-cctbx_2026.4+ds2+~3.28.0+ds1-2_amd64.deb'. dpkg-deb: building package 'libcctbx0-dbgsym' in '../libcctbx0-dbgsym_2026.4+ds2+~3.28.0+ds1-2_amd64.deb'. dpkg-deb: building package 'python3-cctbx-dbgsym' in '../python3-cctbx-dbgsym_2026.4+ds2+~3.28.0+ds1-2_amd64.deb'. dpkg-genbuildinfo --build=any -O../cctbx_2026.4+ds2+~3.28.0+ds1-2_amd64.buildinfo dpkg-genchanges --build=any -O../cctbx_2026.4+ds2+~3.28.0+ds1-2_amd64.changes dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) -------------------------------------------------------------------------------- Build finished at 2026-05-16T13:45:57Z Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Changes Sat, 16 May 2026 13:45:58 +0000 | +------------------------------------------------------------------------------+ cctbx_2026.4+ds2+~3.28.0+ds1-2_amd64.changes: --------------------------------------------- Format: 1.8 Date: Sat, 09 May 2026 16:23:00 +0200 Source: cctbx Binary: libcctbx-dev libcctbx0 libcctbx0-dbgsym python3-cctbx python3-cctbx-dbgsym Architecture: amd64 Version: 2026.4+ds2+~3.28.0+ds1-2 Distribution: unstable Urgency: medium Maintainer: Debian Science Maintainers Changed-By: Roland Mas Description: libcctbx-dev - Computational Crystallography Toolbox - headers libcctbx0 - Computational Crystallography Toolbox - runtime libraries python3-cctbx - Python Toolbox for crystallography Changes: cctbx (2026.4+ds2+~3.28.0+ds1-2) unstable; urgency=medium . * Various packaging improvements thanks to "debcraft improve". Checksums-Sha1: e0697a16e80192685b4a8c467530c1c26e6e2015 23226 cctbx_2026.4+ds2+~3.28.0+ds1-2_amd64.buildinfo d4ff13818aae18025abfa7993737efe8b51830f0 1167496 libcctbx-dev_2026.4+ds2+~3.28.0+ds1-2_amd64.deb fe5c0f1d8e7efa7b71faf3d952372ea09ebabb59 9999320 libcctbx0-dbgsym_2026.4+ds2+~3.28.0+ds1-2_amd64.deb d7b159a29ea1bd63910703bca422b2d476bbd06b 2277740 libcctbx0_2026.4+ds2+~3.28.0+ds1-2_amd64.deb f54e0709b6175c2533e69c8a9ababaedec2469e9 291089984 python3-cctbx-dbgsym_2026.4+ds2+~3.28.0+ds1-2_amd64.deb 8ec0d751ed74072192ea905d6800a133b4979914 127758240 python3-cctbx_2026.4+ds2+~3.28.0+ds1-2_amd64.deb Checksums-Sha256: 41a45d7d791e819480153adb3940ae687234c201adc0a9756934517f56858e63 23226 cctbx_2026.4+ds2+~3.28.0+ds1-2_amd64.buildinfo b7996325092ed7d3a4c863ea6774a465ec8de896c9506fbf399b5504d5c38bed 1167496 libcctbx-dev_2026.4+ds2+~3.28.0+ds1-2_amd64.deb b1ee5dd0bfe51b56a21f3dbc1223a61f5607de64b09bf041064fe682ebc718ed 9999320 libcctbx0-dbgsym_2026.4+ds2+~3.28.0+ds1-2_amd64.deb 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python3-cctbx_2026.4+ds2+~3.28.0+ds1-2_amd64.deb +------------------------------------------------------------------------------+ | Buildinfo Sat, 16 May 2026 13:45:58 +0000 | +------------------------------------------------------------------------------+ Format: 1.0 Source: cctbx Binary: libcctbx-dev libcctbx0 libcctbx0-dbgsym python3-cctbx python3-cctbx-dbgsym Architecture: amd64 Version: 2026.4+ds2+~3.28.0+ds1-2 Checksums-Md5: 28dbf57230d7d01f3668bbd698981be1 1167496 libcctbx-dev_2026.4+ds2+~3.28.0+ds1-2_amd64.deb 23172481f0499a13130eebb103a91c29 9999320 libcctbx0-dbgsym_2026.4+ds2+~3.28.0+ds1-2_amd64.deb 45bdde8c5c7a6ddf387f4abc4a4eae8d 2277740 libcctbx0_2026.4+ds2+~3.28.0+ds1-2_amd64.deb dce536ae172b14765edd55db8a737384 291089984 python3-cctbx-dbgsym_2026.4+ds2+~3.28.0+ds1-2_amd64.deb 508c8c4d56d464c47d58af71b47ead23 127758240 python3-cctbx_2026.4+ds2+~3.28.0+ds1-2_amd64.deb Checksums-Sha1: d4ff13818aae18025abfa7993737efe8b51830f0 1167496 libcctbx-dev_2026.4+ds2+~3.28.0+ds1-2_amd64.deb fe5c0f1d8e7efa7b71faf3d952372ea09ebabb59 9999320 libcctbx0-dbgsym_2026.4+ds2+~3.28.0+ds1-2_amd64.deb d7b159a29ea1bd63910703bca422b2d476bbd06b 2277740 libcctbx0_2026.4+ds2+~3.28.0+ds1-2_amd64.deb f54e0709b6175c2533e69c8a9ababaedec2469e9 291089984 python3-cctbx-dbgsym_2026.4+ds2+~3.28.0+ds1-2_amd64.deb 8ec0d751ed74072192ea905d6800a133b4979914 127758240 python3-cctbx_2026.4+ds2+~3.28.0+ds1-2_amd64.deb Checksums-Sha256: b7996325092ed7d3a4c863ea6774a465ec8de896c9506fbf399b5504d5c38bed 1167496 libcctbx-dev_2026.4+ds2+~3.28.0+ds1-2_amd64.deb b1ee5dd0bfe51b56a21f3dbc1223a61f5607de64b09bf041064fe682ebc718ed 9999320 libcctbx0-dbgsym_2026.4+ds2+~3.28.0+ds1-2_amd64.deb 4b8861ae57be47152f448023d81dccb589dda0af6ed95f0bca1c35899b81656c 2277740 libcctbx0_2026.4+ds2+~3.28.0+ds1-2_amd64.deb d64484cb087124e24dfcb0f6ffcf77e65e544942270593d634cbd710f624e75a 291089984 python3-cctbx-dbgsym_2026.4+ds2+~3.28.0+ds1-2_amd64.deb 457896551b6022104556744049fe1234770d51fd7666878bb7997ed0926322d8 127758240 python3-cctbx_2026.4+ds2+~3.28.0+ds1-2_amd64.deb Build-Origin: Debian Build-Architecture: amd64 Build-Date: Sat, 16 May 2026 13:45:52 +0000 Build-Path: /build/reproducible-path/cctbx-2026.4+ds2+~3.28.0+ds1 Installed-Build-Depends: adwaita-icon-theme (= 50.0-1), architecture-properties (= 0.2.6+b2), at-spi2-common (= 2.60.3-1), autoconf (= 2.72-6), automake (= 1:1.18.1-4), autopoint (= 0.23.2-2), autotools-dev (= 20240727.1+nmu1), base-files (= 14), base-passwd (= 3.6.8), bash (= 5.3-3), binutils (= 2.46-3), binutils-common (= 2.46-3), binutils-x86-64-linux-gnu (= 2.46-3), bsdextrautils (= 2.42-6), bubblewrap (= 0.11.2-1), build-essential (= 12.12), bzip2 (= 1.0.8-6+b2), ca-certificates (= 20260223), comerr-dev (= 2.1-1.47.4-1), coreutils (= 9.10-1), cpp (= 4:15.2.0-5+b1), cpp-15 (= 15.2.0-17), cpp-15-x86-64-linux-gnu (= 15.2.0-17), cpp-x86-64-linux-gnu (= 4:15.2.0-5+b1), dash (= 0.5.12-12), dbus (= 1.16.2-4), dbus-bin (= 1.16.2-4), dbus-daemon (= 1.16.2-4), dbus-session-bus-common (= 1.16.2-4), dbus-system-bus-common (= 1.16.2-4), dbus-user-session (= 1.16.2-4), dconf-gsettings-backend (= 0.49.0-4+b1), dconf-service (= 0.49.0-4+b1), debconf (= 1.5.92), debhelper (= 13.31), debianutils (= 5.23.2), dh-autoreconf (= 22), dh-exec (= 0.31), dh-python (= 7.20260309), dh-strip-nondeterminism (= 1.15.0-1), diffutils (= 1:3.12-1), dpkg (= 1.23.7), dpkg-dev (= 1.23.7), dwz (= 0.16-4), fftw-dev (= 2.1.5-8), fftw2 (= 2.1.5-8), file (= 1:5.46-5+b2), findutils (= 4.10.0-4), fontconfig (= 2.17.1-5), fontconfig-config (= 2.17.1-5), fonts-dejavu-core (= 2.37-9), fonts-dejavu-extra (= 2.37-9), fonts-dejavu-mono (= 2.37-9), fonts-font-awesome (= 5.0.10+really4.7.0~dfsg-4.1), fonts-lato (= 2.015-1), fonts-lyx (= 2.5.1-1), fonts-urw-base35 (= 20200910-9), g++ (= 4:15.2.0-5+b1), g++-15 (= 15.2.0-17), g++-15-x86-64-linux-gnu (= 15.2.0-17), g++-x86-64-linux-gnu (= 4:15.2.0-5+b1), gcc (= 4:15.2.0-5+b1), gcc-15 (= 15.2.0-17), gcc-15-base (= 15.2.0-17), gcc-15-x86-64-linux-gnu (= 15.2.0-17), gcc-16-base (= 16-20260425-1), gcc-x86-64-linux-gnu (= 4:15.2.0-5+b1), gettext (= 0.23.2-2), gettext-base (= 0.23.2-2), glycin-loaders (= 2.0.8-1), glycin-thumbnailers (= 2.0.8-1), grep (= 3.12-1), groff-base (= 1.24.1-1), gtk-update-icon-cache (= 4.22.3+ds-1), gzip (= 1.13-1), hdf5-helpers (= 1.14.6+repack-2+b1), hicolor-icon-theme (= 0.18-2), hostname (= 3.25), ibverbs-providers (= 63.0-1), init-system-helpers (= 1.69), intltool-debian (= 0.35.0+20060710.6), jq (= 1.8.1-5), krb5-multidev (= 1.22.1-2+b1), libabsl20260107 (= 20260107.0-5), libacl1 (= 2.3.2-3), libaec-dev (= 1.1.6-1), libaec0 (= 1.1.6-1), libamd-comgr3 (= 7.0.2+dfsg-3), libamdhip64-6 (= 6.4.3-5), libann-cctbx-dev (= 1.1.2+doc-9+b1), libann-cctbx0 (= 1.1.2+doc-9+b1), libantlr3c-3.4-0 (= 3.4+dfsg-4+b3), libantlr3c-dev (= 3.4+dfsg-4+b3), libaom3 (= 3.13.1-2+b1), libapparmor1 (= 4.1.7-2), libarchive-zip-perl (= 1.68-1), libasan8 (= 16-20260425-1), libasound2-data (= 1.2.15.3-1), libasound2t64 (= 1.2.15.3-1+b1), libasyncns0 (= 0.8-7+b2), libatk-bridge2.0-0t64 (= 2.60.3-1), libatk1.0-0t64 (= 2.60.3-1), libatomic1 (= 16-20260425-1), libatspi2.0-0t64 (= 2.60.3-1), libattr1 (= 1:2.5.2-4), libaudit-common (= 1:4.1.2-1), libaudit1 (= 1:4.1.2-1+b1), libavahi-client3 (= 0.8-18), libavahi-common-data (= 0.8-18), libavahi-common3 (= 0.8-18), libavif16 (= 1.4.1-1+b1), libbinutils (= 2.46-3), libblas3 (= 3.12.1-7+b2), libblkid1 (= 2.42-6), libboost-atomic1.90-dev (= 1.90.0-6), libboost-atomic1.90.0 (= 1.90.0-6), libboost-chrono1.90-dev (= 1.90.0-6), libboost-chrono1.90.0 (= 1.90.0-6), libboost-container1.90-dev (= 1.90.0-6), libboost-container1.90.0 (= 1.90.0-6), libboost-date-time1.90-dev (= 1.90.0-6), libboost-date-time1.90.0 (= 1.90.0-6), libboost-dev (= 1.90.0.2), libboost-exception1.90-dev (= 1.90.0-6), libboost-graph1.90-dev (= 1.90.0-6), libboost-graph1.90.0 (= 1.90.0-6), libboost-numpy-dev (= 1.90.0.2), libboost-numpy1.90-dev (= 1.90.0-6), libboost-numpy1.90.0 (= 1.90.0-6), libboost-python-dev (= 1.90.0.2), libboost-python1.90-dev (= 1.90.0-6), libboost-python1.90.0 (= 1.90.0-6), libboost-regex1.90-dev (= 1.90.0-6), libboost-regex1.90.0 (= 1.90.0-6), libboost-serialization1.90-dev (= 1.90.0-6), libboost-serialization1.90.0 (= 1.90.0-6), libboost-test1.90-dev (= 1.90.0-6), libboost-test1.90.0 (= 1.90.0-6), libboost-thread-dev (= 1.90.0.2), libboost-thread1.90-dev (= 1.90.0-6), libboost-thread1.90.0 (= 1.90.0-6), libboost-timer-dev (= 1.90.0.2), libboost-timer1.90-dev (= 1.90.0-6), libboost-timer1.90.0 (= 1.90.0-6), libboost1.90-dev (= 1.90.0-6), libbrotli-dev (= 1.2.0-3), libbrotli1 (= 1.2.0-3), libbsd0 (= 0.12.2-2+b2), libbz2-1.0 (= 1.0.8-6+b2), libc-bin (= 2.42-15), libc-dev-bin (= 2.42-15), libc-gconv-modules-extra (= 2.42-15), libc6 (= 2.42-15), libc6-dev (= 2.42-15), libcairo-gobject2 (= 1.18.4-3+b1), libcairo2 (= 1.18.4-3+b1), libcap-ng0 (= 0.9.3-1), libcap2 (= 1:2.78-1), libcbf-dev (= 0.9.7+dfsg1-5.1+b1), libcbf1t64 (= 0.9.7+dfsg1-5.1+b1), libcc1-0 (= 16-20260425-1), libccp4-data (= 8.0.0-5), libccp4-dev (= 8.0.0-5+b1), libccp4c0t64 (= 8.0.0-5+b1), libccp4f0t64 (= 8.0.0-5+b1), libclang-common-21-dev (= 1:21.1.8-7+b1), libclipper-dev (= 2.1.20201109-2+b4), libclipper2 (= 2.1.20201109-2+b4), libcloudproviders0 (= 0.4.0-2+b1), libcolord2 (= 1.4.8-3), libcom-err2 (= 1.47.4-1), libcrypt1 (= 1:4.5.1-1+b1), libctf-nobfd0 (= 2.46-3), libctf0 (= 2.46-3), libcups2t64 (= 2.4.18-1), libcurl3t64-gnutls (= 8.20.0-1), libcurl4-openssl-dev (= 8.20.0-1), libcurl4t64 (= 8.20.0-1), libdatrie1 (= 0.2.14-1+b1), libdav1d7 (= 1.5.3-1+b2), libdb5.3t64 (= 5.3.28+dfsg2-11+b1), libdbus-1-3 (= 1.16.2-4), libdconf1 (= 0.49.0-4+b1), libde265-0 (= 1.0.18-1), libdebconfclient0 (= 0.282+b3), libdebhelper-perl (= 13.31), libdecor-0-0 (= 0.2.5-1+b1), libdeflate-dev (= 1.23-2+b2), libdeflate0 (= 1.23-2+b2), libdouble-conversion3 (= 3.4.0-1+b1), libdpkg-perl (= 1.23.7), libdrm-amdgpu1 (= 2.4.131-1+b1), libdrm-common (= 2.4.131-1), libdrm-intel1 (= 2.4.131-1+b1), libdrm2 (= 2.4.131-1+b1), libedit2 (= 3.1-20251016-1+b1), libegl-mesa0 (= 26.0.6-1), libegl1 (= 1.7.0-3+b1), libeigen3-dev (= 3.4.0-5), libelf1t64 (= 0.195-1), libepoxy0 (= 1.5.10-2+b2), libevdev2 (= 1.13.6+dfsg-2), libevent-2.1-7t64 (= 2.1.12-stable-10+b2), libevent-core-2.1-7t64 (= 2.1.12-stable-10+b2), libevent-pthreads-2.1-7t64 (= 2.1.12-stable-10+b2), libexpat1 (= 2.8.0-1), libexpat1-dev (= 2.8.0-1), libfabric1 (= 2.1.0-1.1+b2), libffi8 (= 3.5.2-4), libfftw3-bin (= 3.3.10-2+b2), libfftw3-dev (= 3.3.10-2+b2), libfftw3-double3 (= 3.3.10-2+b2), libfftw3-long3 (= 3.3.10-2+b2), libfftw3-quad3 (= 3.3.10-2+b2), libfftw3-single3 (= 3.3.10-2+b2), libfile-stripnondeterminism-perl (= 1.15.0-1), libflac14 (= 1.5.0+ds-5+b1), libfontconfig1 (= 2.17.1-5), libfontenc1 (= 1:1.1.8-1+b3), libfreetype6 (= 2.14.3+dfsg-1), libfribidi0 (= 1.0.16-5+b1), libfuse3-4 (= 3.18.2-2), libgav1-2 (= 0.20.0-2+b1), libgbm1 (= 26.0.6-1), libgcc-15-dev (= 15.2.0-17), libgcc-s1 (= 16-20260425-1), libgcrypt20 (= 1.12.2-1), libgdbm-compat4t64 (= 1.26-1+b2), libgdbm6t64 (= 1.26-1+b2), libgdk-pixbuf-2.0-0 (= 2.44.6+dfsg-2), libgdk-pixbuf2.0-common (= 2.44.6+dfsg-2), libgfortran5 (= 16-20260425-1), libgl-dev (= 1.7.0-3+b1), libgl1 (= 1.7.0-3+b1), libgl1-mesa-dri (= 26.0.6-1), libgles2 (= 1.7.0-3+b1), libglew2.3 (= 2.3.1-6), libglib2.0-0t64 (= 2.88.1-2), libglu1-mesa (= 9.0.2-1.1+b4), libglu1-mesa-dev (= 9.0.2-1.1+b4), libglut3.12 (= 3.4.0-6+b2), libglvnd0 (= 1.7.0-3+b1), libglx-dev (= 1.7.0-3+b1), libglx-mesa0 (= 26.0.6-1), libglx0 (= 1.7.0-3+b1), libglycin-2-0 (= 2.0.8-1), libgmp-dev (= 2:6.3.0+dfsg-5+b2), libgmp10 (= 2:6.3.0+dfsg-5+b2), libgmpxx4ldbl (= 2:6.3.0+dfsg-5+b2), libgnutls-dane0t64 (= 3.8.13-1), libgnutls28-dev (= 3.8.13-1), libgnutls30t64 (= 3.8.13-1), libgomp1 (= 16-20260425-1), libgpg-error0 (= 1.59-4), libgprofng0 (= 2.46-3), libgraphite2-3 (= 1.3.14-13), libgssapi-krb5-2 (= 1.22.1-2+b1), libgssrpc4t64 (= 1.22.1-2+b1), libgtk-3-0t64 (= 3.24.52-1), libgtk-3-common (= 3.24.52-1), libgudev-1.0-0 (= 238-7+b2), libharfbuzz-subset0 (= 12.3.2-2+b2), libharfbuzz0b (= 12.3.2-2+b2), libhdf5-310 (= 1.14.6+repack-2+b1), libhdf5-cpp-310 (= 1.14.6+repack-2+b1), libhdf5-dev (= 1.14.6+repack-2+b1), libhdf5-fortran-310 (= 1.14.6+repack-2+b1), libhdf5-hl-310 (= 1.14.6+repack-2+b1), libhdf5-hl-cpp-310 (= 1.14.6+repack-2+b1), libhdf5-hl-fortran-310 (= 1.14.6+repack-2+b1), libheif-plugin-dav1d (= 1.21.2-4), libheif-plugin-libde265 (= 1.21.2-4), libheif1 (= 1.21.2-4), libhogweed6t64 (= 3.10.2-1+b1), libhsa-runtime64-1 (= 6.4.3+dfsg-5), libhwasan0 (= 16-20260425-1), libhwloc-plugins (= 2.13.0-2), libhwloc15 (= 2.13.0-2), libhwy1t64 (= 1.3.0-2+b1), libibmad5 (= 63.0-1), libibumad3 (= 63.0-1), libibverbs1 (= 63.0-1), libice6 (= 2:1.1.1-1+b2), libicu78 (= 78.3-1), libidn2-0 (= 2.3.8-4+b2), libidn2-dev (= 2.3.8-4+b2), libimagequant0 (= 4.4.1-1+b2), libinput-bin (= 1.31.1-1), libinput10 (= 1.31.1-1), libisl23 (= 0.27-2), libitm1 (= 16-20260425-1), libjansson4 (= 2.14-2+b4), libjbig-dev (= 2.1-6.1+b3), libjbig0 (= 2.1-6.1+b3), libjpeg-dev (= 1:3.1.3-4), libjpeg62-turbo (= 1:3.1.3-4), libjpeg62-turbo-dev (= 1:3.1.3-4), libjq1 (= 1.8.1-5), libjs-jquery (= 3.7.1+dfsg+~3.5.33-1), libjs-sphinxdoc (= 9.1.0-2), libjxl0.11 (= 0.11.2-1), libk5crypto3 (= 1.22.1-2+b1), libkadm5clnt-mit12 (= 1.22.1-2+b1), libkadm5srv-mit12 (= 1.22.1-2+b1), libkdb5-10t64 (= 1.22.1-2+b1), libkeyutils1 (= 1.6.3-6+b2), libkrb5-3 (= 1.22.1-2+b1), libkrb5-dev (= 1.22.1-2+b1), libkrb5support0 (= 1.22.1-2+b1), liblapack3 (= 3.12.1-7+b2), liblcms2-2 (= 2.19.1-1), libldap-dev (= 2.6.10+dfsg-1+b2), libldap2 (= 2.6.10+dfsg-1+b2), liblerc-dev (= 4.1.0+ds-1), liblerc4 (= 4.1.0+ds-1), libllvm21 (= 1:21.1.8-7+b1), liblsan0 (= 16-20260425-1), liblz4-1 (= 1.10.0-10), liblz4-dev (= 1.10.0-10), liblzf1 (= 3.6-4+b4), liblzma-dev (= 5.8.3-1), liblzma5 (= 5.8.3-1), libmagic-mgc (= 1:5.46-5+b2), libmagic1t64 (= 1:5.46-5+b2), libmd0 (= 1.1.0-2+b2), libmd4c0 (= 0.5.2-2+b2), libmmdb2-0 (= 2.0.22-1+b3), libmmdb2-dev (= 2.0.22-1+b3), libmount1 (= 2.42-6), libmp3lame0 (= 3.101~svn6531+dfsg-1), libmpc3 (= 1.3.1-3), libmpfr6 (= 4.2.2-3), libmpg123-0t64 (= 1.33.5-1), libmtdev1t64 (= 1.1.7-1+b2), libmunge2 (= 0.5.18-1), libncursesw6 (= 6.6+20251231-1+b1), libnetcdf22 (= 1:4.10.0-1), libnettle8t64 (= 3.10.2-1+b1), libnghttp2-14 (= 1.69.0-1), libnghttp2-dev (= 1.69.0-1), libnghttp3-9 (= 1.15.0-1), libnghttp3-dev (= 1.15.0-1), libngtcp2-16 (= 1.22.1-1), libngtcp2-crypto-gnutls8 (= 1.22.1-1), libngtcp2-crypto-ossl-dev (= 1.22.1-1), libngtcp2-crypto-ossl0 (= 1.22.1-1), libngtcp2-dev (= 1.22.1-1), libnl-3-200 (= 3.12.0-2+b1), libnl-route-3-200 (= 3.12.0-2+b1), libnotify4 (= 0.8.8-1+b1), libnuma1 (= 2.0.19-1+b2), libogg0 (= 1.3.6-2+b1), libonig5 (= 6.9.10-1+b1), libopengl-dev (= 1.7.0-3+b1), libopengl0 (= 1.7.0-3+b1), libopenjp2-7 (= 2.5.4-1.1), libopenmpi40 (= 5.0.10-1), libopus0 (= 1.6.1-1+b1), libp11-kit-dev (= 0.26.2-2), libp11-kit0 (= 0.26.2-2), libpam-modules (= 1.7.0-5+b2), libpam-modules-bin (= 1.7.0-5+b2), libpam-runtime (= 1.7.0-5), libpam-systemd (= 260.1-1), libpam0g (= 1.7.0-5+b2), libpango-1.0-0 (= 1.57.1-2), libpangocairo-1.0-0 (= 1.57.1-2), libpangoft2-1.0-0 (= 1.57.1-2), libpciaccess0 (= 0.17-3+b4), libpcre2-16-0 (= 10.46-1+b2), libpcre2-32-0 (= 10.46-1+b2), libpcre2-8-0 (= 10.46-1+b2), libperl5.40 (= 5.40.1-7+b1), libpipeline1 (= 1.5.8-3), libpixman-1-0 (= 0.46.4-1+b2), libpkgconf7 (= 2.5.1-4), libpmix2t64 (= 6.0.0+really5.0.9-3+b1), libpng16-16t64 (= 1.6.58-1), libpopt0 (= 1.19+dfsg-2+b2), libproc2-0 (= 2:4.0.4-9+b2), libpsl-dev (= 0.21.5-1), libpsl5t64 (= 0.21.5-1), libpsm2-2 (= 11.2.185-2.1), libpulse0 (= 17.0+dfsg1-2.1+b1), libpython3-all-dev (= 3.13.9-3+b1), libpython3-dev (= 3.13.9-3+b1), libpython3-stdlib (= 3.13.9-3+b1), libpython3.13 (= 3.13.12-1), libpython3.13-dev (= 3.13.12-1), libpython3.13-minimal (= 3.13.12-1), libpython3.13-stdlib (= 3.13.12-1), libpython3.14 (= 3.14.5~rc1-1), libpython3.14-dev (= 3.14.5~rc1-1), libpython3.14-minimal (= 3.14.5~rc1-1), libpython3.14-stdlib (= 3.14.5~rc1-1), libqhull-r8.0 (= 2020.2-9), libqt5core5t64 (= 5.15.17+dfsg-8), libqt5dbus5t64 (= 5.15.17+dfsg-8), libqt5designer5 (= 5.15.17-4+b1), libqt5gui5t64 (= 5.15.17+dfsg-8), libqt5help5 (= 5.15.17-4+b1), libqt5network5t64 (= 5.15.17+dfsg-8), libqt5opengl5t64 (= 5.15.17+dfsg-8), libqt5printsupport5t64 (= 5.15.17+dfsg-8), libqt5sql5t64 (= 5.15.17+dfsg-8), libqt5test5t64 (= 5.15.17+dfsg-8), libqt5widgets5t64 (= 5.15.17+dfsg-8), libqt5xml5t64 (= 5.15.17+dfsg-8), libquadmath0 (= 16-20260425-1), libraqm0 (= 0.10.5-1), librav1e0.8 (= 0.8.1-10), librdmacm1t64 (= 63.0-1), libreadline8t64 (= 8.3-4), librsvg2-2 (= 2.62.1+dfsg-1), librtmp-dev (= 2.6-1), librtmp1 (= 2.6-1), libsasl2-2 (= 2.1.28+dfsg1-11), libsasl2-modules-db (= 2.1.28+dfsg1-11), libsdl2-2.0-0 (= 2.32.68+ds-1), libsdl3-0 (= 3.4.8+ds-1), libseccomp2 (= 2.6.0-2+b1), libselinux1 (= 3.10-1), libsensors-config (= 1:3.6.2-2), libsensors5 (= 1:3.6.2-2+b2), libsframe3 (= 2.46-3), libsharpyuv-dev (= 1.5.0-0.1+b2), libsharpyuv0 (= 1.5.0-0.1+b2), libsm6 (= 2:1.2.6-1+b2), libsmartcols1 (= 2.42-6), libsndfile1 (= 1.2.2-4+b1), libsqlite3-0 (= 3.46.1-9+b1), libssh2-1-dev (= 1.11.1-2), libssh2-1t64 (= 1.11.1-2), libssl-dev (= 3.6.2-1), libssl3t64 (= 3.6.2-1), libssm-dev (= 1.4.0-2+b4), libssm2 (= 1.4.0-2+b4), libstdc++-15-dev (= 15.2.0-17), libstdc++6 (= 16-20260425-1), libsvtav1enc4 (= 4.1.0+dfsg-1), libsystemd-shared (= 260.1-1), libsystemd0 (= 260.1-1), libsz2 (= 1.1.6-1), libtasn1-6 (= 4.21.0-2+b1), libtasn1-6-dev (= 4.21.0-2+b1), libtcl8.6 (= 8.6.17+dfsg-1+b2), libthai-data (= 0.1.30-1), libthai0 (= 0.1.30-1+b1), libtiff-dev (= 4.7.1-2), libtiff6 (= 4.7.1-2), libtiffxx6 (= 4.7.1-2), libtinfo6 (= 6.6+20251231-1+b1), libtk8.6 (= 8.6.17-1+b2), libtool (= 2.5.4-11), libtsan2 (= 16-20260425-1), libubsan1 (= 16-20260425-1), libucc1 (= 1.7.0~rc1-1), libuchardet0 (= 0.0.8-2+b2), libucx0 (= 1.20.1~rc2-1), libudev1 (= 260.1-1), libunbound8 (= 1.25.0-1), libunistring5 (= 1.4.2-1), libuuid1 (= 2.42-6), libvorbis0a (= 1.3.7-3+b2), libvorbisenc2 (= 1.3.7-3+b2), libvulkan1 (= 1.4.341.0-1), libwacom-common (= 2.18.0-1), libwacom9 (= 2.18.0-1), libwayland-client0 (= 1.24.0-2+b2), libwayland-cursor0 (= 1.24.0-2+b2), libwayland-egl1 (= 1.24.0-2+b2), libwebp-dev (= 1.5.0-0.1+b2), libwebp7 (= 1.5.0-0.1+b2), libwebpdecoder3 (= 1.5.0-0.1+b2), libwebpdemux2 (= 1.5.0-0.1+b2), libwebpmux3 (= 1.5.0-0.1+b2), libwxbase3.2-1t64 (= 3.2.9+dfsg-1+b1), libwxgtk-gl3.2-1t64 (= 3.2.9+dfsg-1+b1), libwxgtk3.2-1t64 (= 3.2.9+dfsg-1+b1), libx11-6 (= 2:1.8.13-1), libx11-data (= 2:1.8.13-1), libx11-dev (= 2:1.8.13-1), libx11-xcb1 (= 2:1.8.13-1), libxau-dev (= 1:1.0.11-1+b2), libxau6 (= 1:1.0.11-1+b2), libxcb-dri3-0 (= 1.17.0-2+b2), libxcb-glx0 (= 1.17.0-2+b2), libxcb-icccm4 (= 0.4.2-1+b2), libxcb-image0 (= 0.4.0-2+b3), libxcb-keysyms1 (= 0.4.1-1+b2), libxcb-present0 (= 1.17.0-2+b2), libxcb-randr0 (= 1.17.0-2+b2), libxcb-render-util0 (= 0.3.10-1+b2), libxcb-render0 (= 1.17.0-2+b2), libxcb-shape0 (= 1.17.0-2+b2), libxcb-shm0 (= 1.17.0-2+b2), libxcb-sync1 (= 1.17.0-2+b2), libxcb-util1 (= 0.4.1-1+b2), libxcb-xfixes0 (= 1.17.0-2+b2), libxcb-xinerama0 (= 1.17.0-2+b2), libxcb-xinput0 (= 1.17.0-2+b2), libxcb-xkb1 (= 1.17.0-2+b2), libxcb1 (= 1.17.0-2+b2), libxcb1-dev (= 1.17.0-2+b2), libxcomposite1 (= 1:0.4.6-1+b2), libxcursor1 (= 1:1.2.3-1+b2), libxdamage1 (= 1:1.1.7-1+b1), libxdmcp-dev (= 1:1.1.5-2+b1), libxdmcp6 (= 1:1.1.5-2+b1), libxext6 (= 2:1.3.4-1+b4), libxfixes3 (= 1:6.0.0-2+b5), libxft2 (= 2.3.6-1+b5), libxi6 (= 2:1.8.2-2+b1), libxinerama1 (= 2:1.1.4-3+b5), libxkbcommon-x11-0 (= 1.13.1-1), libxkbcommon0 (= 1.13.1-1), libxml2-16 (= 2.15.2+dfsg-0.1), libxnvctrl0 (= 535.171.04-1+b3), libxrandr2 (= 2:1.5.4-1+b4), libxrender1 (= 1:0.9.12-1+b2), libxres1 (= 2:1.2.1-2), libxshmfence1 (= 1.3.3-1+b2), libxslt1.1 (= 1.1.45-0.1), libxss1 (= 1:1.2.3-1+b4), libxtst6 (= 2:1.2.5-1+b2), libxxf86vm1 (= 1:1.1.4-2+b1), libxxhash-dev (= 0.8.3-2+b2), libxxhash0 (= 0.8.3-2+b2), libyuv0 (= 0.0.1922.20260106-1+b1), libz3-4 (= 4.13.3-1+b2), libze1 (= 1.28.2-2), libzopfli1 (= 1.0.3-3), libzstd-dev (= 1.5.7+dfsg-3+b2), libzstd1 (= 1.5.7+dfsg-3+b2), linux-libc-dev (= 7.0.3-1), m4 (= 1.4.21-1), make (= 4.4.1-3), man-db (= 2.13.1-1), mawk (= 1.3.4.20260302-1), media-types (= 14.0.0), mesa-libgallium (= 26.0.6-1), mount (= 2.42-6), ncurses-base (= 6.6+20251231-1), ncurses-bin (= 6.6+20251231-1+b1), netbase (= 6.5), nettle-dev (= 3.10.2-1+b1), ocl-icd-libopencl1 (= 2.3.4-1+b1), openssl (= 3.6.2-1), openssl-provider-legacy (= 3.6.2-1), patch (= 2.8-2), perl (= 5.40.1-7+b1), perl-base (= 5.40.1-7+b1), perl-modules-5.40 (= 5.40.1-7), pkg-config (= 2.5.1-4), pkgconf (= 2.5.1-4), pkgconf-bin (= 2.5.1-4), po-debconf (= 1.0.22), procps (= 2:4.0.4-9+b2), pybind11-dev (= 3.0.1-3), pybuild-plugin-pyproject (= 7.20260309), pymol-data (= 3.1.0+dfsg-1), python-matplotlib-data (= 3.10.7+dfsg1-3), python3 (= 3.13.9-3+b1), python3-all (= 3.13.9-3+b1), python3-all-dev (= 3.13.9-3+b1), python3-attr (= 26.1.0-1), python3-autocommand (= 2.2.2-4), python3-biopython (= 1.86+dfsg-1+b1), python3-brotli (= 1.2.0-3), python3-build (= 1.4.0-1), python3-cairo (= 1.27.0-2+b1), python3-certifi (= 2026.4.22+ds-1), python3-chardet (= 5.2.0+dfsg-2), python3-charset-normalizer (= 3.4.7-1), python3-contourpy (= 1.3.3-1+b1), python3-cycler (= 0.12.1-2), python3-dateutil (= 2.9.0-4), python3-decorator (= 5.2.1-2), python3-dev (= 3.13.9-3+b1), python3-editables (= 0.5-3), python3-flexcache (= 0.3-3), python3-flexparser (= 0.4-2), python3-fonttools (= 4.62.1-7), python3-freetype (= 2.5.1-2), python3-h5py (= 3.16.0-2), python3-h5py-serial (= 3.16.0-2), python3-hatchling (= 1.29.0-1), python3-hdf5plugin (= 5.1.0-1), python3-idna (= 3.11-1), python3-inflect (= 7.5.0-1), python3-iniconfig (= 2.1.0-2), python3-installer (= 1.0.0+dfsg1-1), python3-jaraco.context (= 6.0.1-2), python3-jaraco.functools (= 4.1.0-1), python3-jaraco.text (= 4.0.0-1), python3-kiwisolver (= 1.5.0-1), python3-legacy-cgi (= 2.6.4-2), python3-lxml (= 6.1.0-1), python3-lz4 (= 4.4.5+dfsg-1), python3-matplotlib (= 3.10.7+dfsg1-3), python3-minimal (= 3.13.9-3+b1), python3-more-itertools (= 10.8.0-1), python3-mpmath (= 1.4.1-2), python3-mrcfile (= 1.5.4-3), python3-msgpack (= 1.1.2-2), python3-natsort (= 8.4.0-2), python3-numpy (= 1:2.4.4+ds-2), python3-numpy-dev (= 1:2.4.4+ds-2), python3-nxmx (= 0.0.7-1), python3-opengl (= 3.1.10+dfsg-1), python3-ordered-set (= 4.1.0-1), python3-packaging (= 26.0-1), python3-pathspec (= 1.0.4-1), python3-pil (= 12.2.0-1), python3-pil.imagetk (= 12.2.0-1), python3-pint (= 0.25.3-1), python3-pip (= 26.0.1+dfsg-1), python3-pkg-resources (= 78.1.1-0.1), python3-platformdirs (= 4.9.6-1), python3-pluggy (= 1.6.0-2), python3-procrunner (= 2.3.3-2), python3-psutil (= 7.1.0-1), python3-pycbf (= 0.9.7+dfsg1-5.1+b1), python3-pygments (= 2.19.2+dfsg-1), python3-pymol (= 3.1.0+dfsg-1+b3), python3-pyparsing (= 3.3.2-2), python3-pyproject-hooks (= 1.2.0-1), python3-pyqt5 (= 5.15.11+dfsg-4), python3-pyqt5.qtopengl (= 5.15.11+dfsg-4), python3-pyqt5.sip (= 12.18.0-1), python3-pytest (= 9.0.3-1), python3-reportlab (= 4.4.10-1), python3-requests (= 2.32.5+dfsg-1), python3-rlpycairo (= 0.3.0-4), python3-scipy (= 1.16.3-4), python3-setuptools (= 78.1.1-0.1), python3-six (= 1.17.0-2), python3-sympy (= 1.14.0-3), python3-tk (= 3.13.9-3+b1), python3-tqdm (= 4.67.3-1), python3-trove-classifiers (= 2026.1.14.14-1), python3-typeguard (= 4.4.4-2), python3-typing-extensions (= 4.15.0-2), python3-ufolib2 (= 0.18.1+dfsg1-1), python3-uharfbuzz (= 0.53.3-1+b1), python3-urllib3 (= 2.6.3-2), python3-wheel (= 0.47.0-1), python3-wxgtk4.0 (= 4.2.4+dfsg-1), python3-zipp (= 3.23.0-1), python3-zopfli (= 0.4.1-1), python3.13 (= 3.13.12-1), python3.13-dev (= 3.13.12-1), python3.13-minimal (= 3.13.12-1), python3.13-tk (= 3.13.12-1), python3.14 (= 3.14.5~rc1-1), python3.14-dev (= 3.14.5~rc1-1), python3.14-minimal (= 3.14.5~rc1-1), python3.14-tk (= 3.14.5~rc1-1), readline-common (= 8.3-4), rpcsvc-proto (= 1.4.3-1), rsync (= 3.4.2+ds1-2), scons (= 4.10.1+dfsg-2), sed (= 4.9-3), sensible-utils (= 0.0.26), sfftw-dev (= 2.1.5-8), sfftw2 (= 2.1.5-8), sgml-base (= 1.31+nmu1), shared-mime-info (= 2.4-5+b3), sphinx-rtd-theme-common (= 3.1.0+dfsg-1), systemd (= 260.1-1), systemd-sysv (= 260.1-1), sysvinit-utils (= 3.18-1), tar (= 1.35+dfsg-4), tzdata (= 2026b-1), unicode-data (= 17.0.0-2), util-linux (= 2.42-6), w3c-sgml-lib (= 1.3-3), x11-common (= 1:7.7+26), x11proto-dev (= 2025.1-1), xfonts-encodings (= 1:1.0.4-2.2), xfonts-utils (= 1:7.7+7), xkb-data (= 2.47-1), xml-core (= 0.20), xorg-sgml-doctools (= 1:1.12.1-1), xtrans-dev (= 1.6.0-1), xz-utils (= 5.8.3-1), zlib1g (= 1:1.3.dfsg+really1.3.2-3), zlib1g-dev (= 1:1.3.dfsg+really1.3.2-3) Environment: DEB_BUILD_OPTIONS="parallel=6" LANG="C.UTF-8" LC_COLLATE="C.UTF-8" LC_CTYPE="C.UTF-8" SOURCE_DATE_EPOCH="1778336580" +------------------------------------------------------------------------------+ | Package contents Sat, 16 May 2026 13:45:58 +0000 | +------------------------------------------------------------------------------+ libcctbx-dev_2026.4+ds2+~3.28.0+ds1-2_amd64.deb ----------------------------------------------- new Debian package, version 2.0. size 1167496 bytes: control archive=23416 bytes. 2957 bytes, 55 lines control 63993 bytes, 830 lines md5sums Package: libcctbx-dev Source: cctbx Version: 2026.4+ds2+~3.28.0+ds1-2 Architecture: amd64 Maintainer: Debian Science Maintainers Installed-Size: 8657 Depends: libann-cctbx-dev, libboost-python-dev, libccp4-dev, libcctbx0 (= 2026.4+ds2+~3.28.0+ds1-2) Section: libdevel Priority: optional Homepage: https://github.com/cctbx/cctbx_project Description: Computational Crystallography Toolbox - headers Computational Crystallography Toolbox contains following modules: - annlib_adaptbx: - boost_adaptbx: wrappers for Boost functionality in CCTBX - cbflib_adaptbx: - ccp4io_adaptbx: - cctbx: Libraries for general crystallographic applications, useful for both small-molecule and macro-molecular crystallography. - cma_es: - crys3d: Modules for the display of molecules, electron density, and reciprocal space data. - dxtbx: The Diffraction Image Toolbox, a library for handling X-ray detector data of arbitrary complexity from a variety of standard formats. - fable: Fortran EMulation library for porting Fortran77 to C++. - gltbx: Python bindings for OpenGL - iotbx: Working with common crystallographic file formats. - libtbx: The build system common to all other modules. This includes a very thin wrapper around the SCons software construction tool. It also contains many useful frameworks and utilities to simplify application development, including tools for regression testing, parallelization across multiprocessor systems and managed clusters, and a flexible, modular configuration syntax called PHIL (Python Hierarchial Interface Language) used throughout the CCTBX. - mmtbx: Functionality specific to macromolecular crystallography. This includes all of the machinery required for setup of geometry restraints, bulk solvent correction and scaling, analysis of macromolecular diffraction data, calculation of weighted map coefficients, and most of the methods implemented in phenix.refine. The majority of infrastructure for the MolProbity validation server (and Phenix equivalent) is also located here. - omptbx: OpenMP interface. - rstbx: A reciprocal space toolbox to autoindex small molecule Bragg diffraction, given the reciprocal space vectors. - scitbx: General scientific calculations. his includes a family of high-level C++ array types, a fast Fourier transform library, and a C++ port of the popular L-BFGS quasi-Newton minimizer. - smtbx: Small-Molecule crystallography. - spotfinder: - tbxx: - wxtbx: wxPython controls used in the Phenix GUI and various utilities . This package provide everything needed to link against the cctbx libraries. drwxr-xr-x root/root 0 2026-05-09 14:23 ./ drwxr-xr-x root/root 0 2026-05-09 14:23 ./usr/ drwxr-xr-x root/root 0 2026-05-09 14:23 ./usr/include/ drwxr-xr-x root/root 0 2026-05-09 14:23 ./usr/include/annlib_adaptbx/ -rw-r--r-- root/root 2068 2026-05-09 14:23 ./usr/include/annlib_adaptbx/ann_adaptor.h drwxr-xr-x root/root 0 2026-05-09 14:23 ./usr/include/boost_adaptbx/ -rw-r--r-- root/root 933 2026-04-30 22:59 ./usr/include/boost_adaptbx/boost_range_python.hpp -rw-r--r-- root/root 930 2026-04-30 22:59 ./usr/include/boost_adaptbx/convertible.h -rw-r--r-- root/root 3412 2026-04-30 22:59 ./usr/include/boost_adaptbx/exporting.hpp -rw-r--r-- root/root 3770 2026-04-30 22:59 ./usr/include/boost_adaptbx/floating_point_exceptions.h drwxr-xr-x root/root 0 2026-04-30 22:59 ./usr/include/boost_adaptbx/graph/ -rw-r--r-- root/root 1588 2026-04-30 22:59 ./usr/include/boost_adaptbx/graph/graph_export_adaptor.hpp -rw-r--r-- 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2026-04-30 22:59 ./usr/include/scitbx/slatec/lib_cpp.h drwxr-xr-x root/root 0 2026-04-30 22:59 ./usr/include/scitbx/sparse/ -rw-r--r-- root/root 1653 2026-04-30 22:59 ./usr/include/scitbx/sparse/approx_equal.h drwxr-xr-x root/root 0 2026-04-30 22:59 ./usr/include/scitbx/sparse/boost_python/ -rw-r--r-- root/root 1063 2026-04-30 22:59 ./usr/include/scitbx/sparse/boost_python/vector.h -rw-r--r-- root/root 3021 2026-04-30 22:59 ./usr/include/scitbx/sparse/dfs.h -rw-r--r-- root/root 4091 2026-04-30 22:59 ./usr/include/scitbx/sparse/io.h -rw-r--r-- root/root 10007 2026-04-30 22:59 ./usr/include/scitbx/sparse/lu_factorization.h -rw-r--r-- root/root 17865 2026-04-30 22:59 ./usr/include/scitbx/sparse/matrix.h -rw-r--r-- root/root 2122 2026-04-30 22:59 ./usr/include/scitbx/sparse/operators.h -rw-r--r-- root/root 6837 2026-04-30 22:59 ./usr/include/scitbx/sparse/random.h -rw-r--r-- root/root 2541 2026-04-30 22:59 ./usr/include/scitbx/sparse/triangular.h -rw-r--r-- root/root 195 2026-04-30 22:59 ./usr/include/scitbx/sparse/util.h -rw-r--r-- root/root 22182 2026-04-30 22:59 ./usr/include/scitbx/sparse/vector.h drwxr-xr-x root/root 0 2026-04-30 22:59 ./usr/include/scitbx/stl/ -rw-r--r-- root/root 1708 2026-04-30 22:59 ./usr/include/scitbx/stl/map_as_python_dict.h -rw-r--r-- root/root 283 2026-04-30 22:59 ./usr/include/scitbx/stl/map_fwd.h -rw-r--r-- root/root 8037 2026-04-30 22:59 ./usr/include/scitbx/stl/map_wrapper.h -rw-r--r-- root/root 2096 2026-04-30 22:59 ./usr/include/scitbx/stl/set_wrapper.h -rw-r--r-- root/root 1038 2026-04-30 22:59 ./usr/include/scitbx/stl/vector_as_python_list.h -rw-r--r-- root/root 306 2026-04-30 22:59 ./usr/include/scitbx/stl/vector_io.h -rw-r--r-- root/root 4019 2026-04-30 22:59 ./usr/include/scitbx/stl/vector_wrapper.h drwxr-xr-x root/root 0 2026-04-30 22:59 ./usr/include/scitbx/suffixtree/ drwxr-xr-x root/root 0 2026-04-30 22:59 ./usr/include/scitbx/suffixtree/boost_python/ -rw-r--r-- root/root 7204 2026-04-30 22:59 ./usr/include/scitbx/suffixtree/boost_python/edge_exports.hpp -rw-r--r-- root/root 1305 2026-04-30 22:59 ./usr/include/scitbx/suffixtree/boost_python/iterator_wrapper.hpp -rw-r--r-- root/root 248 2026-04-30 22:59 ./usr/include/scitbx/suffixtree/boost_python/object_extensions.hpp -rw-r--r-- root/root 1600 2026-04-30 22:59 ./usr/include/scitbx/suffixtree/boost_python/tree_exports.hpp -rw-r--r-- root/root 4163 2026-04-30 22:59 ./usr/include/scitbx/suffixtree/builder.hpp -rw-r--r-- root/root 7108 2026-04-30 22:59 ./usr/include/scitbx/suffixtree/edge.hpp -rw-r--r-- root/root 1008 2026-04-30 22:59 ./usr/include/scitbx/suffixtree/exception.hpp -rw-r--r-- root/root 1599 2026-04-30 22:59 ./usr/include/scitbx/suffixtree/glyph.hpp -rw-r--r-- root/root 3320 2026-04-30 22:59 ./usr/include/scitbx/suffixtree/iterator.hpp -rw-r--r-- root/root 4096 2026-04-30 22:59 ./usr/include/scitbx/suffixtree/matching_statistics.hpp -rw-r--r-- root/root 3423 2026-04-30 22:59 ./usr/include/scitbx/suffixtree/tree.hpp -rw-r--r-- root/root 1432 2026-04-30 22:59 ./usr/include/scitbx/suffixtree/word.hpp -rw-r--r-- root/root 18201 2026-04-30 22:59 ./usr/include/scitbx/sym_mat2.h -rw-r--r-- root/root 22179 2026-04-30 22:59 ./usr/include/scitbx/sym_mat3.h -rw-r--r-- root/root 197 2026-04-30 22:59 ./usr/include/scitbx/type_holder.h drwxr-xr-x root/root 0 2026-04-30 22:59 ./usr/include/scitbx/util/ -rw-r--r-- root/root 847 2026-04-30 22:59 ./usr/include/scitbx/util/cpu_timer.h -rw-r--r-- root/root 12686 2026-04-30 22:59 ./usr/include/scitbx/vec2.h -rw-r--r-- root/root 16941 2026-04-30 22:59 ./usr/include/scitbx/vec3.h -rw-r--r-- root/root 10207 2026-04-30 22:59 ./usr/include/scitbx/weighted_histogram.h drwxr-xr-x root/root 0 2026-04-30 22:59 ./usr/include/scitbx/wigner/ -rw-r--r-- root/root 5923 2026-04-30 22:59 ./usr/include/scitbx/wigner/wigner3j.h drwxr-xr-x root/root 0 2026-05-09 14:23 ./usr/include/smtbx/ drwxr-xr-x root/root 0 2026-04-30 22:59 ./usr/include/smtbx/ab_initio/ -rw-r--r-- root/root 1006 2026-04-30 22:59 ./usr/include/smtbx/ab_initio/density_modification.h drwxr-xr-x root/root 0 2026-05-09 14:23 ./usr/include/smtbx/boost_python/ -rw-r--r-- root/root 393 2026-05-09 14:23 ./usr/include/smtbx/boost_python/flex_fwd.h -rw-r--r-- root/root 2301 2026-04-30 22:59 ./usr/include/smtbx/error.h -rw-r--r-- root/root 476 2026-04-30 22:59 ./usr/include/smtbx/import_cctbx.h -rw-r--r-- root/root 152 2026-04-30 22:59 ./usr/include/smtbx/import_scitbx_af.h drwxr-xr-x root/root 0 2026-04-30 22:59 ./usr/include/smtbx/refinement/ drwxr-xr-x root/root 0 2026-04-30 22:59 ./usr/include/smtbx/refinement/constraints/ -rw-r--r-- root/root 1732 2026-04-30 22:59 ./usr/include/smtbx/refinement/constraints/affine.h -rw-r--r-- root/root 4433 2026-04-30 22:59 ./usr/include/smtbx/refinement/constraints/direction.h -rw-r--r-- root/root 9783 2026-04-30 22:59 ./usr/include/smtbx/refinement/constraints/geometrical_hydrogens.h -rw-r--r-- root/root 2539 2026-04-30 22:59 ./usr/include/smtbx/refinement/constraints/occupancy.h -rw-r--r-- root/root 2394 2026-04-30 22:59 ./usr/include/smtbx/refinement/constraints/proxy.h -rw-r--r-- root/root 31391 2026-04-30 22:59 ./usr/include/smtbx/refinement/constraints/reparametrisation.h -rw-r--r-- root/root 3676 2026-04-30 22:59 ./usr/include/smtbx/refinement/constraints/rigid.h -rw-r--r-- root/root 5965 2026-04-30 22:59 ./usr/include/smtbx/refinement/constraints/same_group.h -rw-r--r-- root/root 1648 2026-04-30 22:59 ./usr/include/smtbx/refinement/constraints/scaled_adp.h -rw-r--r-- root/root 3966 2026-04-30 22:59 ./usr/include/smtbx/refinement/constraints/scatterer_parameters.h -rw-r--r-- root/root 3888 2026-04-30 22:59 ./usr/include/smtbx/refinement/constraints/shared.h -rw-r--r-- root/root 4524 2026-04-30 22:59 ./usr/include/smtbx/refinement/constraints/special_position.h -rw-r--r-- root/root 1137 2026-04-30 22:59 ./usr/include/smtbx/refinement/constraints/symmetry_equivalent.h -rw-r--r-- root/root 1134 2026-04-30 22:59 ./usr/include/smtbx/refinement/constraints/u_eq_dependent_u_iso.h -rw-r--r-- root/root 1015 2026-04-30 22:59 ./usr/include/smtbx/refinement/constraints/u_iso_dependent_u_iso.h -rw-r--r-- root/root 148 2026-04-30 22:59 ./usr/include/smtbx/refinement/import_cctbx_xray.h -rw-r--r-- root/root 20577 2026-04-30 22:59 ./usr/include/smtbx/refinement/least_squares.h drwxr-xr-x root/root 0 2026-04-30 22:59 ./usr/include/smtbx/refinement/restraints/ -rw-r--r-- root/root 5055 2026-04-30 22:59 ./usr/include/smtbx/refinement/restraints/origin_fixing.h -rw-r--r-- root/root 2566 2026-04-30 22:59 ./usr/include/smtbx/refinement/weighting_schemes.h drwxr-xr-x root/root 0 2026-04-30 22:59 ./usr/include/smtbx/structure_factors/ drwxr-xr-x root/root 0 2026-04-30 22:59 ./usr/include/smtbx/structure_factors/direct/ -rw-r--r-- root/root 52104 2026-04-30 22:59 ./usr/include/smtbx/structure_factors/direct/standard_xray.h -rw-r--r-- root/root 16076 2026-04-30 22:59 ./usr/include/smtbx/structure_factors/direct/table_based.h drwxr-xr-x root/root 0 2026-05-09 14:23 ./usr/include/spotfinder/ drwxr-xr-x root/root 0 2026-04-30 22:59 ./usr/include/spotfinder/applications/ -rw-r--r-- root/root 2023 2026-04-30 22:59 ./usr/include/spotfinder/applications/find_active_area.h drwxr-xr-x root/root 0 2026-04-30 22:59 ./usr/include/spotfinder/core_toolbox/ drwxr-xr-x root/root 0 2026-04-30 22:59 ./usr/include/spotfinder/core_toolbox/boost_python/ -rw-r--r-- root/root 3218 2026-04-30 22:59 ./usr/include/spotfinder/core_toolbox/boost_python/singlemask.h -rw-r--r-- root/root 4008 2026-04-30 22:59 ./usr/include/spotfinder/core_toolbox/distl.h -rw-r--r-- root/root 2509 2026-04-30 22:59 ./usr/include/spotfinder/core_toolbox/hough.h -rw-r--r-- root/root 15844 2026-04-30 22:59 ./usr/include/spotfinder/core_toolbox/libdistl.h -rw-r--r-- root/root 5293 2026-04-30 22:59 ./usr/include/spotfinder/core_toolbox/spot_shapes.h -rw-r--r-- root/root 276 2026-04-30 22:59 ./usr/include/spotfinder/core_toolbox/spot_types.h -rw-r--r-- root/root 4454 2026-04-30 22:59 ./usr/include/spotfinder/core_toolbox/spotfilter.h drwxr-xr-x root/root 0 2026-04-30 22:59 ./usr/include/spotfinder/dxtbx_toolbox/ -rw-r--r-- root/root 3504 2026-04-30 22:59 ./usr/include/spotfinder/dxtbx_toolbox/distl.h -rw-r--r-- root/root 837 2026-04-30 22:59 ./usr/include/spotfinder/dxtbx_toolbox/libdistl.h drwxr-xr-x root/root 0 2026-04-30 22:59 ./usr/include/tbxx/ -rw-r--r-- root/root 487 2026-04-30 22:59 ./usr/include/tbxx/alignment.h -rw-r--r-- root/root 1760 2026-04-30 22:59 ./usr/include/tbxx/error_utils.hpp -rw-r--r-- root/root 2811 2026-04-30 22:59 ./usr/include/tbxx/libc_backtrace.hpp -rw-r--r-- root/root 2857 2026-04-30 22:59 ./usr/include/tbxx/optional_copy.hpp -rw-r--r-- root/root 1493 2026-04-30 22:59 ./usr/include/tbxx/pretty_type_name.hpp -rw-r--r-- root/root 2124 2026-04-30 22:59 ./usr/include/tbxx/time_accu.hpp drwxr-xr-x root/root 0 2026-05-09 14:23 ./usr/lib/ drwxr-xr-x root/root 0 2026-05-09 14:23 ./usr/lib/cctbx/ drwxr-xr-x root/root 0 2026-05-09 14:23 ./usr/lib/cctbx/python3.13/ lrwxrwxrwx root/root 0 2026-05-09 14:23 ./usr/lib/cctbx/python3.13/include -> ../../../include/cctbx drwxr-xr-x root/root 0 2026-05-09 14:23 ./usr/lib/cctbx/python3.14/ lrwxrwxrwx root/root 0 2026-05-09 14:23 ./usr/lib/cctbx/python3.14/include -> ../../../include/cctbx drwxr-xr-x root/root 0 2026-05-09 14:23 ./usr/lib/x86_64-linux-gnu/ lrwxrwxrwx root/root 0 2026-05-09 14:23 ./usr/lib/x86_64-linux-gnu/libann_adaptor.so -> libann_adaptor.so.0.0.1 lrwxrwxrwx root/root 0 2026-05-09 14:23 ./usr/lib/x86_64-linux-gnu/libasymmetric_map.so -> libasymmetric_map.so.0.0.1 lrwxrwxrwx root/root 0 2026-05-09 14:23 ./usr/lib/x86_64-linux-gnu/libcbf-private.so -> libcbf-private.so.0.0.1 lrwxrwxrwx root/root 0 2026-05-09 14:23 ./usr/lib/x86_64-linux-gnu/libccp4io.so -> libccp4io.so.0.0.1 lrwxrwxrwx root/root 0 2026-05-09 14:23 ./usr/lib/x86_64-linux-gnu/libcctbx.so -> libcctbx.so.0.0.1 lrwxrwxrwx root/root 0 2026-05-09 14:23 ./usr/lib/x86_64-linux-gnu/libcctbx_sgtbx_asu.so -> libcctbx_sgtbx_asu.so.0.0.1 lrwxrwxrwx root/root 0 2026-05-09 14:23 ./usr/lib/x86_64-linux-gnu/libdxtbxspotfinder.so -> libdxtbxspotfinder.so.0.0.1 lrwxrwxrwx root/root 0 2026-05-09 14:23 ./usr/lib/x86_64-linux-gnu/libiotbx_mtz.so -> libiotbx_mtz.so.0.0.1 lrwxrwxrwx root/root 0 2026-05-09 14:23 ./usr/lib/x86_64-linux-gnu/libiotbx_pdb.so -> libiotbx_pdb.so.0.0.1 lrwxrwxrwx root/root 0 2026-05-09 14:23 ./usr/lib/x86_64-linux-gnu/libiotbx_xplor.so -> libiotbx_xplor.so.0.0.1 lrwxrwxrwx root/root 0 2026-05-09 14:23 ./usr/lib/x86_64-linux-gnu/libmmtbx_masks.so -> libmmtbx_masks.so.0.0.1 lrwxrwxrwx root/root 0 2026-05-09 14:23 ./usr/lib/x86_64-linux-gnu/libmmtbx_tls.so -> libmmtbx_tls.so.0.0.1 lrwxrwxrwx root/root 0 2026-05-09 14:23 ./usr/lib/x86_64-linux-gnu/libomptbx.so -> libomptbx.so.0.0.1 lrwxrwxrwx root/root 0 2026-05-09 14:23 ./usr/lib/x86_64-linux-gnu/librstbx.so -> librstbx.so.0.0.1 lrwxrwxrwx root/root 0 2026-05-09 14:23 ./usr/lib/x86_64-linux-gnu/libscitbx_boost_python.so -> libscitbx_boost_python.so.0.0.1 lrwxrwxrwx root/root 0 2026-05-09 14:23 ./usr/lib/x86_64-linux-gnu/libscitbx_minpack.so -> libscitbx_minpack.so.0.0.1 lrwxrwxrwx root/root 0 2026-05-09 14:23 ./usr/lib/x86_64-linux-gnu/libscitbx_slatec.so -> libscitbx_slatec.so.0.0.1 lrwxrwxrwx root/root 0 2026-05-09 14:23 ./usr/lib/x86_64-linux-gnu/libsmtbx_refinement_constraints.so -> libsmtbx_refinement_constraints.so.0.0.1 lrwxrwxrwx root/root 0 2026-05-09 14:23 ./usr/lib/x86_64-linux-gnu/libspotfinder.so -> libspotfinder.so.0.0.1 drwxr-xr-x root/root 0 2026-05-09 14:23 ./usr/share/ drwxr-xr-x root/root 0 2026-05-09 14:23 ./usr/share/doc/ drwxr-xr-x root/root 0 2026-05-09 14:23 ./usr/share/doc/libcctbx-dev/ -rw-r--r-- root/root 2171 2026-05-09 14:23 ./usr/share/doc/libcctbx-dev/changelog.Debian.gz -rw-r--r-- root/root 4896 2026-04-30 22:59 ./usr/share/doc/libcctbx-dev/changelog.gz -rw-r--r-- root/root 38654 2026-03-07 14:36 ./usr/share/doc/libcctbx-dev/copyright libcctbx0-dbgsym_2026.4+ds2+~3.28.0+ds1-2_amd64.deb --------------------------------------------------- new Debian package, version 2.0. size 9999320 bytes: control archive=1476 bytes. 1155 bytes, 12 lines control 2100 bytes, 20 lines md5sums Package: libcctbx0-dbgsym Source: cctbx Version: 2026.4+ds2+~3.28.0+ds1-2 Auto-Built-Package: debug-symbols Architecture: amd64 Maintainer: Debian Science Maintainers Installed-Size: 13902 Depends: libcctbx0 (= 2026.4+ds2+~3.28.0+ds1-2) Section: debug Priority: optional Description: debug symbols for libcctbx0 Build-Ids: 2b82adb6dd72220670992c6c5de7140c1279ae25 3686265389a706435b1c99311ceacdc8bc968b9c 36fbb258d8a77ae80432af30f417a4d025f39f1c 3b87da4c24e4e3b619ed044875ce9e84371428be 3d98530f8862b061037100071735baf6a71478bc 530fc7b15e66391145ef991a7a3fe5ff199a1c51 5c3ab8b916ce7e0e99ca35a49b94cb0cd59036a9 63048f1527f08fa0cf2c36275e7d3c475fe68bfe 7ca0bd25451ba48fb597a5f8d8151125aa887a59 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./usr/lib/debug/.build-id/d3/5fa913a165a4b47bc42414795d7fcc71b85e5c.debug drwxr-xr-x root/root 0 2026-05-09 14:23 ./usr/lib/debug/.build-id/dc/ -rw-r--r-- root/root 7216 2026-05-09 14:23 ./usr/lib/debug/.build-id/dc/c53ccfb12c5504257e1108dbe244a6a8efe606.debug drwxr-xr-x root/root 0 2026-05-09 14:23 ./usr/lib/debug/.dwz/ drwxr-xr-x root/root 0 2026-05-09 14:23 ./usr/lib/debug/.dwz/x86_64-linux-gnu/ -rw-r--r-- root/root 344336 2026-05-09 14:23 ./usr/lib/debug/.dwz/x86_64-linux-gnu/libcctbx0.debug drwxr-xr-x root/root 0 2026-05-09 14:23 ./usr/share/ drwxr-xr-x root/root 0 2026-05-09 14:23 ./usr/share/doc/ lrwxrwxrwx root/root 0 2026-05-09 14:23 ./usr/share/doc/libcctbx0-dbgsym -> libcctbx0 libcctbx0_2026.4+ds2+~3.28.0+ds1-2_amd64.deb -------------------------------------------- new Debian package, version 2.0. size 2277740 bytes: control archive=2552 bytes. 3053 bytes, 55 lines control 1806 bytes, 22 lines md5sums 1057 bytes, 19 lines shlibs 66 bytes, 2 lines triggers Package: libcctbx0 Source: cctbx Version: 2026.4+ds2+~3.28.0+ds1-2 Architecture: amd64 Maintainer: Debian Science Maintainers Installed-Size: 11027 Depends: libann-cctbx0 (>= 1.1.2+doc), libboost-python1.90.0 (>= 1.90.0), libboost-python1.90.0-py313, libc6 (>= 2.38), libcbf1t64 (>= 0.9.7+dfsg1-2~), libccp4c0t64 (>= 8.0.0), libgcc-s1 (>= 4.0), libstdc++6 (>= 13.1) Section: libs Priority: optional Homepage: https://github.com/cctbx/cctbx_project Description: Computational Crystallography Toolbox - runtime libraries Computational Crystallography Toolbox contains following modules: - annlib_adaptbx: - boost_adaptbx: wrappers for Boost functionality in CCTBX - cbflib_adaptbx: - ccp4io_adaptbx: - cctbx: Libraries for general crystallographic applications, useful for both small-molecule and macro-molecular crystallography. - cma_es: - crys3d: Modules for the display of molecules, electron density, and reciprocal space data. - dxtbx: The Diffraction Image Toolbox, a library for handling X-ray detector data of arbitrary complexity from a variety of standard formats. - fable: Fortran EMulation library for porting Fortran77 to C++. - gltbx: Python bindings for OpenGL - iotbx: Working with common crystallographic file formats. - libtbx: The build system common to all other modules. This includes a very thin wrapper around the SCons software construction tool. It also contains many useful frameworks and utilities to simplify application development, including tools for regression testing, parallelization across multiprocessor systems and managed clusters, and a flexible, modular configuration syntax called PHIL (Python Hierarchial Interface Language) used throughout the CCTBX. - mmtbx: Functionality specific to macromolecular crystallography. This includes all of the machinery required for setup of geometry restraints, bulk solvent correction and scaling, analysis of macromolecular diffraction data, calculation of weighted map coefficients, and most of the methods implemented in phenix.refine. The majority of infrastructure for the MolProbity validation server (and Phenix equivalent) is also located here. - omptbx: OpenMP interface. - rstbx: A reciprocal space toolbox to autoindex small molecule Bragg diffraction, given the reciprocal space vectors. - scitbx: General scientific calculations. his includes a family of high-level C++ array types, a fast Fourier transform library, and a C++ port of the popular L-BFGS quasi-Newton minimizer. - smtbx: Small-Molecule crystallography. - spotfinder: - tbxx: - wxtbx: wxPython controls used in the Phenix GUI and various utilities . This package provide the cctbx runtime libraries. drwxr-xr-x root/root 0 2026-05-09 14:23 ./ drwxr-xr-x root/root 0 2026-05-09 14:23 ./usr/ drwxr-xr-x root/root 0 2026-05-09 14:23 ./usr/lib/ drwxr-xr-x root/root 0 2026-05-09 14:23 ./usr/lib/x86_64-linux-gnu/ lrwxrwxrwx root/root 0 2026-05-09 14:23 ./usr/lib/x86_64-linux-gnu/libann_adaptor.so.0 -> libann_adaptor.so.0.0.1 -rw-r--r-- root/root 69040 2026-05-09 14:23 ./usr/lib/x86_64-linux-gnu/libann_adaptor.so.0.0.1 lrwxrwxrwx root/root 0 2026-05-09 14:23 ./usr/lib/x86_64-linux-gnu/libasymmetric_map.so.0 -> libasymmetric_map.so.0.0.1 -rw-r--r-- root/root 486144 2026-05-09 14:23 ./usr/lib/x86_64-linux-gnu/libasymmetric_map.so.0.0.1 lrwxrwxrwx root/root 0 2026-05-09 14:23 ./usr/lib/x86_64-linux-gnu/libcbf-private.so.0 -> libcbf-private.so.0.0.1 -rw-r--r-- root/root 81640 2026-05-09 14:23 ./usr/lib/x86_64-linux-gnu/libcbf-private.so.0.0.1 lrwxrwxrwx root/root 0 2026-05-09 14:23 ./usr/lib/x86_64-linux-gnu/libccp4io.so.0 -> libccp4io.so.0.0.1 -rw-r--r-- root/root 14440 2026-05-09 14:23 ./usr/lib/x86_64-linux-gnu/libccp4io.so.0.0.1 lrwxrwxrwx root/root 0 2026-05-09 14:23 ./usr/lib/x86_64-linux-gnu/libcctbx.so.0 -> libcctbx.so.0.0.1 -rw-r--r-- root/root 2832728 2026-05-09 14:23 ./usr/lib/x86_64-linux-gnu/libcctbx.so.0.0.1 lrwxrwxrwx root/root 0 2026-05-09 14:23 ./usr/lib/x86_64-linux-gnu/libcctbx_sgtbx_asu.so.0 -> libcctbx_sgtbx_asu.so.0.0.1 -rw-r--r-- root/root 3742696 2026-05-09 14:23 ./usr/lib/x86_64-linux-gnu/libcctbx_sgtbx_asu.so.0.0.1 lrwxrwxrwx root/root 0 2026-05-09 14:23 ./usr/lib/x86_64-linux-gnu/libdxtbxspotfinder.so.0 -> libdxtbxspotfinder.so.0.0.1 -rw-r--r-- root/root 206640 2026-05-09 14:23 ./usr/lib/x86_64-linux-gnu/libdxtbxspotfinder.so.0.0.1 lrwxrwxrwx root/root 0 2026-05-09 14:23 ./usr/lib/x86_64-linux-gnu/libiotbx_mtz.so.0 -> libiotbx_mtz.so.0.0.1 -rw-r--r-- root/root 302400 2026-05-09 14:23 ./usr/lib/x86_64-linux-gnu/libiotbx_mtz.so.0.0.1 lrwxrwxrwx root/root 0 2026-05-09 14:23 ./usr/lib/x86_64-linux-gnu/libiotbx_pdb.so.0 -> libiotbx_pdb.so.0.0.1 -rw-r--r-- root/root 1526088 2026-05-09 14:23 ./usr/lib/x86_64-linux-gnu/libiotbx_pdb.so.0.0.1 lrwxrwxrwx root/root 0 2026-05-09 14:23 ./usr/lib/x86_64-linux-gnu/libiotbx_xplor.so.0 -> libiotbx_xplor.so.0.0.1 -rw-r--r-- root/root 98480 2026-05-09 14:23 ./usr/lib/x86_64-linux-gnu/libiotbx_xplor.so.0.0.1 lrwxrwxrwx root/root 0 2026-05-09 14:23 ./usr/lib/x86_64-linux-gnu/libmmtbx_masks.so.0 -> libmmtbx_masks.so.0.0.1 -rw-r--r-- root/root 381776 2026-05-09 14:23 ./usr/lib/x86_64-linux-gnu/libmmtbx_masks.so.0.0.1 lrwxrwxrwx root/root 0 2026-05-09 14:23 ./usr/lib/x86_64-linux-gnu/libmmtbx_tls.so.0 -> libmmtbx_tls.so.0.0.1 -rw-r--r-- root/root 97944 2026-05-09 14:23 ./usr/lib/x86_64-linux-gnu/libmmtbx_tls.so.0.0.1 lrwxrwxrwx root/root 0 2026-05-09 14:23 ./usr/lib/x86_64-linux-gnu/libomptbx.so.0 -> libomptbx.so.0.0.1 -rw-r--r-- root/root 14560 2026-05-09 14:23 ./usr/lib/x86_64-linux-gnu/libomptbx.so.0.0.1 lrwxrwxrwx root/root 0 2026-05-09 14:23 ./usr/lib/x86_64-linux-gnu/librstbx.so.0 -> librstbx.so.0.0.1 -rw-r--r-- root/root 172992 2026-05-09 14:23 ./usr/lib/x86_64-linux-gnu/librstbx.so.0.0.1 lrwxrwxrwx root/root 0 2026-05-09 14:23 ./usr/lib/x86_64-linux-gnu/libscitbx_boost_python.so.0 -> libscitbx_boost_python.so.0.0.1 -rw-r--r-- root/root 44008 2026-05-09 14:23 ./usr/lib/x86_64-linux-gnu/libscitbx_boost_python.so.0.0.1 lrwxrwxrwx root/root 0 2026-05-09 14:23 ./usr/lib/x86_64-linux-gnu/libscitbx_minpack.so.0 -> libscitbx_minpack.so.0.0.1 -rw-r--r-- root/root 35456 2026-05-09 14:23 ./usr/lib/x86_64-linux-gnu/libscitbx_minpack.so.0.0.1 lrwxrwxrwx root/root 0 2026-05-09 14:23 ./usr/lib/x86_64-linux-gnu/libscitbx_slatec.so.0 -> libscitbx_slatec.so.0.0.1 -rw-r--r-- root/root 18624 2026-05-09 14:23 ./usr/lib/x86_64-linux-gnu/libscitbx_slatec.so.0.0.1 lrwxrwxrwx root/root 0 2026-05-09 14:23 ./usr/lib/x86_64-linux-gnu/libsmtbx_refinement_constraints.so.0 -> libsmtbx_refinement_constraints.so.0.0.1 -rw-r--r-- root/root 642992 2026-05-09 14:23 ./usr/lib/x86_64-linux-gnu/libsmtbx_refinement_constraints.so.0.0.1 lrwxrwxrwx root/root 0 2026-05-09 14:23 ./usr/lib/x86_64-linux-gnu/libspotfinder.so.0 -> libspotfinder.so.0.0.1 -rw-r--r-- root/root 436488 2026-05-09 14:23 ./usr/lib/x86_64-linux-gnu/libspotfinder.so.0.0.1 drwxr-xr-x root/root 0 2026-05-09 14:23 ./usr/share/ drwxr-xr-x root/root 0 2026-05-09 14:23 ./usr/share/doc/ drwxr-xr-x root/root 0 2026-05-09 14:23 ./usr/share/doc/libcctbx0/ -rw-r--r-- root/root 2170 2026-05-09 14:23 ./usr/share/doc/libcctbx0/changelog.Debian.gz -rw-r--r-- root/root 4896 2026-04-30 22:59 ./usr/share/doc/libcctbx0/changelog.gz -rw-r--r-- root/root 38654 2026-03-07 14:36 ./usr/share/doc/libcctbx0/copyright python3-cctbx-dbgsym_2026.4+ds2+~3.28.0+ds1-2_amd64.deb ------------------------------------------------------- new Debian package, version 2.0. size 291089984 bytes: control archive=17260 bytes. 16625 bytes, 12 lines control 42066 bytes, 397 lines md5sums Package: python3-cctbx-dbgsym Source: cctbx Version: 2026.4+ds2+~3.28.0+ds1-2 Auto-Built-Package: debug-symbols Architecture: amd64 Maintainer: Debian Science Maintainers Installed-Size: 555244 Depends: python3-cctbx (= 2026.4+ds2+~3.28.0+ds1-2) Section: debug Priority: optional Description: debug symbols for python3-cctbx Build-Ids: 003b179eee4474b75bcd8f433054bf8f85052bb0 00688386b085a9a3757721fd9f511ce29c86b1d8 0132326faa20160ca2ebe5ce25669ac1185f7ab0 01a6f0176f19e01eff1df57198cd1155962b884f 01d8b21ac12e6d5c6c09f8782f3e1d790c5cdd03 020a8ffabb0b907bd0c0fc04fc0abaf039105991 023aa71fb19152e2aff2e912564019207ba62546 024b2d9f64c6556a8803cc467af22b10ef1410be 02d76a88b860bc437f893bf06bd6301982fc837d 03b011084ca8ff0267fea7308d684fcb60f64a50 0464097cd143b2c2f388f24511a3653507770bdf 057a19f31cba4402c2cbbb9fef0bc92d1bd7b9ff 059b9a83a2f549e75496f8b64c4a0dc7a15b688c 07769824d5acc9ad7f07709b42742bc5d9a2257c 086a179379ca7ebb1789e9632fd05d9daadee78e 09008987b2b6dc121af14ff8d98f19f64f0eaae5 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bytes, 55 lines control 513633 bytes, 5234 lines md5sums 281 bytes, 12 lines * postinst #!/bin/sh 419 bytes, 12 lines * prerm #!/bin/sh Package: python3-cctbx Source: cctbx Version: 2026.4+ds2+~3.28.0+ds1-2 Architecture: amd64 Maintainer: Debian Science Maintainers Installed-Size: 574905 Depends: ca-certificates, libcctbx-dev (= 2026.4+ds2+~3.28.0+ds1-2), libcctbx0 (= 2026.4+ds2+~3.28.0+ds1-2), python3-legacy-cgi, python3-pycbf (>= 0.9.7+dfsg1-2~), tcsh | csh | c-shell, python3 (<< 3.15), python3 (>= 3.13~), python3-h5py (>= 3), python3-hdf5plugin, python3-matplotlib, python3-mrcfile, python3-natsort, python3-numpy, python3-numpy2-abi0 | python3-numpy-abi9, python3-nxmx, python3-ordered-set, python3-pil, python3-pint, python3-procrunner, python3-pymol, python3-requests, python3-scipy, python3-six, python3-tqdm, python3-wxgtk4.0, python3:any, libantlr3c-3.4-0 | libantlr3c-antlrdbg-3.4-0, libboost-numpy1.90.0 (>= 1.90.0), libboost-numpy1.90.0-py313, libboost-numpy1.90.0-py314, libboost-python1.90.0 (>= 1.90.0), libboost-python1.90.0-py313, libboost-python1.90.0-py314, libboost-thread1.90.0 (>= 1.90.0), libboost-timer1.90.0 (>= 1.90.0), libc6 (>= 2.38), libcbf1t64 (>= 0.9.7+dfsg1-2~), libccp4c0t64 (>= 8.0.0), libgcc-s1 (>= 4.0), libgl1, libglu1-mesa | libglu1, libhdf5-310 (>= 1.14.3), libmmdb2-0 (>= 2.0.22), libssm2 (>= 1.4.0), libstdc++6 (>= 14) Section: python Priority: optional Homepage: https://github.com/cctbx/cctbx_project Description: Python Toolbox for crystallography Computational Crystallography Toolbox contains following modules: - annlib_adaptbx: - boost_adaptbx: wrappers for Boost functionality in CCTBX - cbflib_adaptbx: - ccp4io_adaptbx: - cctbx: Libraries for general crystallographic applications, useful for both small-molecule and macro-molecular crystallography. - cma_es: - crys3d: Modules for the display of molecules, electron density, and reciprocal space data. - dxtbx: The Diffraction Image Toolbox, a library for handling X-ray detector data of arbitrary complexity from a variety of standard formats. - fable: Fortran EMulation library for porting Fortran77 to C++. - gltbx: Python bindings for OpenGL - iotbx: Working with common crystallographic file formats. - libtbx: The build system common to all other modules. This includes a very thin wrapper around the SCons software construction tool. It also contains many useful frameworks and utilities to simplify application development, including tools for regression testing, parallelization across multiprocessor systems and managed clusters, and a flexible, modular configuration syntax called PHIL (Python Hierarchial Interface Language) used throughout the CCTBX. - mmtbx: Functionality specific to macromolecular crystallography. This includes all of the machinery required for setup of geometry restraints, bulk solvent correction and scaling, analysis of macromolecular diffraction data, calculation of weighted map coefficients, and most of the methods implemented in phenix.refine. The majority of infrastructure for the MolProbity validation server (and Phenix equivalent) is also located here. - omptbx: OpenMP interface. - rstbx: A reciprocal space toolbox to autoindex small molecule Bragg diffraction, given the reciprocal space vectors. - scitbx: General scientific calculations. his includes a family of high-level C++ array types, a fast Fourier transform library, and a C++ port of the popular L-BFGS quasi-Newton minimizer. - smtbx: Small-Molecule crystallography. - spotfinder: - tbxx: - wxtbx: wxPython controls used in the Phenix GUI and various utilities . 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-rwxr-xr-x root/root 3702 2026-05-09 14:23 ./usr/bin/phenix.hbond -rwxr-xr-x root/root 3798 2026-05-09 14:23 ./usr/bin/phenix.helix_sheet_recs_as_pdb_files -rwxr-xr-x root/root 3818 2026-05-09 14:23 ./usr/bin/phenix.holton_geometry_validation -rwxr-xr-x root/root 3779 2026-05-09 14:23 ./usr/bin/phenix.image_viewer -rwxr-xr-x root/root 3714 2026-05-09 14:23 ./usr/bin/phenix.kinemage -rwxr-xr-x root/root 3710 2026-05-09 14:23 ./usr/bin/phenix.map_box -rwxr-xr-x root/root 3738 2026-05-09 14:23 ./usr/bin/phenix.map_comparison -rwxr-xr-x root/root 3770 2026-05-09 14:23 ./usr/bin/phenix.map_to_model_histogram -rwxr-xr-x root/root 3778 2026-05-09 14:23 ./usr/bin/phenix.map_to_structure_factors -rwxr-xr-x root/root 3698 2026-05-09 14:23 ./usr/bin/phenix.maps -rwxr-xr-x root/root 3698 2026-05-09 14:23 ./usr/bin/phenix.mask -rwxr-xr-x root/root 3758 2026-05-09 14:23 ./usr/bin/phenix.maximum_entropy_map -rwxr-xr-x root/root 3754 2026-05-09 14:23 ./usr/bin/phenix.merging_statistics -rwxr-xr-x 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./usr/bin/phenix.pdb.biomt_reconstruction -rwxr-xr-x root/root 3734 2026-05-09 14:23 ./usr/bin/phenix.pdb.hierarchy -rwxr-xr-x root/root 3766 2026-05-09 14:23 ./usr/bin/phenix.pdb.mtrix_reconstruction -rwxr-xr-x root/root 3722 2026-05-09 14:23 ./usr/bin/phenix.pdb_as_cif -rwxr-xr-x root/root 3754 2026-05-09 14:23 ./usr/bin/phenix.pdb_atom_selection -rwxr-xr-x root/root 3754 2026-05-09 14:23 ./usr/bin/phenix.pdb_cif_conversion -rwxr-xr-x root/root 3789 2026-05-09 14:23 ./usr/bin/phenix.pdb_editor -rwxr-xr-x root/root 3754 2026-05-09 14:23 ./usr/bin/phenix.pdb_interpretation -rwxr-xr-x root/root 3714 2026-05-09 14:23 ./usr/bin/phenix.pdbtools -rwxr-xr-x root/root 3710 2026-05-09 14:23 ./usr/bin/phenix.perigee -rwxr-xr-x root/root 3706 2026-05-09 14:23 ./usr/bin/phenix.polder -rwxr-xr-x root/root 3774 2026-05-09 14:23 ./usr/bin/phenix.process_predicted_model -rwxr-xr-x root/root 3758 2026-05-09 14:23 ./usr/bin/phenix.r_factor_statistics -rwxr-xr-x root/root 3706 2026-05-09 14:23 ./usr/bin/phenix.rama_z -rwxr-xr-x root/root 3746 2026-05-09 14:23 ./usr/bin/phenix.ramalyze -rwxr-xr-x root/root 3738 2026-05-09 14:23 ./usr/bin/phenix.rank_scale_map -rwxr-xr-x root/root 3770 2026-05-09 14:23 ./usr/bin/phenix.real_space_correlation -rwxr-xr-x root/root 3758 2026-05-09 14:23 ./usr/bin/phenix.real_space_diff_map -rwxr-xr-x root/root 3774 2026-05-09 14:23 ./usr/bin/phenix.reciprocal_space_arrays -rwxr-xr-x root/root 3778 2026-05-09 14:23 ./usr/bin/phenix.reduce_cryoem_resolution -rwxr-xr-x root/root 3782 2026-05-09 14:23 ./usr/bin/phenix.reflection_file_converter -rwxr-xr-x root/root 3766 2026-05-09 14:23 ./usr/bin/phenix.reflection_statistics -rwxr-xr-x root/root 3710 2026-05-09 14:23 ./usr/bin/phenix.reindex -rwxr-xr-x root/root 3742 2026-05-09 14:23 ./usr/bin/phenix.remove_outliers -rwxr-xr-x root/root 3752 2026-05-09 14:23 ./usr/bin/phenix.resolution -rwxr-xr-x root/root 3730 2026-05-09 14:23 ./usr/bin/phenix.rna_validate -rwxr-xr-x root/root 3754 2026-05-09 14:23 ./usr/bin/phenix.rna_validate_bonds -rwxr-xr-x root/root 3762 2026-05-09 14:23 ./usr/bin/phenix.rna_validate_puckers -rwxr-xr-x root/root 3758 2026-05-09 14:23 ./usr/bin/phenix.rna_validate_suites -rwxr-xr-x root/root 3746 2026-05-09 14:23 ./usr/bin/phenix.rotalyze -rwxr-xr-x root/root 3802 2026-05-09 14:23 ./usr/bin/phenix.secondary_structure_restraints -rwxr-xr-x root/root 3802 2026-05-09 14:23 ./usr/bin/phenix.secondary_structure_validation -rwxr-xr-x root/root 3766 2026-05-09 14:23 ./usr/bin/phenix.segment_and_split_map -rwxr-xr-x root/root 3698 2026-05-09 14:23 ./usr/bin/phenix.sisa -rwxr-xr-x root/root 3730 2026-05-09 14:23 ./usr/bin/phenix.sort_hetatms -rwxr-xr-x root/root 3718 2026-05-09 14:23 ./usr/bin/phenix.suitename -rwxr-xr-x root/root 3734 2026-05-09 14:23 ./usr/bin/phenix.suitename_old -rwxr-xr-x root/root 3694 2026-05-09 14:23 ./usr/bin/phenix.tls -rwxr-xr-x root/root 3730 2026-05-09 14:23 ./usr/bin/phenix.tls_analysis -rwxr-xr-x root/root 3722 2026-05-09 14:23 ./usr/bin/phenix.tls_as_xyz -rwxr-xr-x root/root 3761 2026-05-09 14:23 ./usr/bin/phenix.undowser2_validation -rwxr-xr-x root/root 3757 2026-05-09 14:23 ./usr/bin/phenix.undowser_validation -rwxr-xr-x root/root 3750 2026-05-09 14:23 ./usr/bin/phenix.unique_with_biomt -rwxr-xr-x root/root 3743 2026-05-09 14:23 ./usr/bin/phenix.validate_H -rwxr-xr-x root/root 3706 2026-05-09 14:23 ./usr/bin/phenix.xmanip -rwxr-xr-x root/root 3710 2026-05-09 14:23 ./usr/bin/phenix.xtriage -rwxr-xr-x root/root 3756 2026-05-09 14:23 ./usr/bin/rstbx.index -rwxr-xr-x root/root 3201 2026-05-09 14:23 ./usr/bin/rstbx.python -rwxr-xr-x root/root 3744 2026-05-09 14:23 ./usr/bin/rstbx.show_build_path -rwxr-xr-x root/root 3744 2026-05-09 14:23 ./usr/bin/rstbx.show_dist_paths -rwxr-xr-x root/root 3733 2026-05-09 14:23 ./usr/bin/rstbx.simage.create -rwxr-xr-x root/root 3844 2026-05-09 14:23 ./usr/bin/rstbx.simage.explore_completeness -rwxr-xr-x root/root 3733 2026-05-09 14:23 ./usr/bin/rstbx.simage.solver -rwxr-xr-x root/root 3804 2026-05-09 14:23 ./usr/bin/rstbx.simage.wx_display -rwxr-xr-x root/root 3719 2026-05-09 14:23 ./usr/bin/samosa.join -rwxr-xr-x root/root 3723 2026-05-09 14:23 ./usr/bin/samosa.scale -rwxr-xr-x root/root 3765 2026-05-09 14:23 ./usr/bin/scitbx.apply_tapenade_hints -rwxr-xr-x root/root 3749 2026-05-09 14:23 ./usr/bin/scitbx.generate_error_h -rwxr-xr-x root/root 3721 2026-05-09 14:23 ./usr/bin/scitbx.histogram -rwxr-xr-x root/root 3202 2026-05-09 14:23 ./usr/bin/scitbx.python -rwxr-xr-x root/root 3745 2026-05-09 14:23 ./usr/bin/scitbx.show_build_path -rwxr-xr-x root/root 3745 2026-05-09 14:23 ./usr/bin/scitbx.show_dist_paths -rwxr-xr-x root/root 3741 2026-05-09 14:23 ./usr/bin/scitbx.show_exp_times -rwxr-xr-x root/root 3725 2026-05-09 14:23 ./usr/bin/scitbx.show_sizes -rwxr-xr-x root/root 3749 2026-05-09 14:23 ./usr/bin/scitbx.unicode_examples -rwxr-xr-x root/root 3205 2026-05-09 14:23 ./usr/bin/serialtbx.python -rwxr-xr-x root/root 3748 2026-05-09 14:23 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root/root 3872 2026-05-09 14:23 ./usr/bin/wxtbx.anomalous_differences_histogram -rwxr-xr-x root/root 3828 2026-05-09 14:23 ./usr/bin/wxtbx.inspect_r_free_flags -rwxr-xr-x root/root 3789 2026-05-09 14:23 ./usr/bin/wxtbx.plan_sad_experiment -rwxr-xr-x root/root 3201 2026-05-09 14:23 ./usr/bin/wxtbx.python -rwxr-xr-x root/root 3744 2026-05-09 14:23 ./usr/bin/wxtbx.show_build_path -rwxr-xr-x root/root 3744 2026-05-09 14:23 ./usr/bin/wxtbx.show_dist_paths -rwxr-xr-x root/root 3804 2026-05-09 14:23 ./usr/bin/wxtbx.show_file_info -rwxr-xr-x root/root 3741 2026-05-09 14:23 ./usr/bin/wxtbx.xtriage drwxr-xr-x root/root 0 2026-05-09 14:23 ./usr/lib/ drwxr-xr-x root/root 0 2026-05-09 14:23 ./usr/lib/cctbx/ drwxr-xr-x root/root 0 2026-05-09 14:23 ./usr/lib/cctbx/python3.13/ drwxr-xr-x root/root 0 2026-05-09 14:23 ./usr/lib/cctbx/python3.13/boost_adaptbx/ drwxr-xr-x root/root 0 2026-05-09 14:23 ./usr/lib/cctbx/python3.13/boost_adaptbx/tests/ -rwxr-xr-x root/root 35384 2026-05-09 14:23 ./usr/lib/cctbx/python3.13/boost_adaptbx/tests/tst_optional_copy drwxr-xr-x root/root 0 2026-05-09 14:23 ./usr/lib/cctbx/python3.13/iotbx/ drwxr-xr-x root/root 0 2026-05-09 14:23 ./usr/lib/cctbx/python3.13/iotbx/pdb/ -rwxr-xr-x root/root 109512 2026-05-09 14:23 ./usr/lib/cctbx/python3.13/iotbx/pdb/hybrid_36_fem -rw-r--r-- root/root 119035 2026-05-09 14:23 ./usr/lib/cctbx/python3.13/libtbx_env drwxr-xr-x root/root 0 2026-05-09 14:23 ./usr/lib/cctbx/python3.13/scitbx/ drwxr-xr-x root/root 0 2026-05-09 14:23 ./usr/lib/cctbx/python3.13/scitbx/array_family/ -rwxr-xr-x root/root 133920 2026-05-09 14:23 ./usr/lib/cctbx/python3.13/scitbx/array_family/tst_accessors -rwxr-xr-x root/root 174896 2026-05-09 14:23 ./usr/lib/cctbx/python3.13/scitbx/array_family/tst_af_1 -rwxr-xr-x root/root 51984 2026-05-09 14:23 ./usr/lib/cctbx/python3.13/scitbx/array_family/tst_af_2 -rwxr-xr-x root/root 80488 2026-05-09 14:23 ./usr/lib/cctbx/python3.13/scitbx/array_family/tst_af_3 -rwxr-xr-x root/root 731968 2026-05-09 14:23 ./usr/lib/cctbx/python3.13/scitbx/array_family/tst_af_4 -rwxr-xr-x root/root 88752 2026-05-09 14:23 ./usr/lib/cctbx/python3.13/scitbx/array_family/tst_af_5 -rwxr-xr-x root/root 68328 2026-05-09 14:23 ./usr/lib/cctbx/python3.13/scitbx/array_family/tst_mat3 -rwxr-xr-x root/root 80672 2026-05-09 14:23 ./usr/lib/cctbx/python3.13/scitbx/array_family/tst_optional_copy -rwxr-xr-x root/root 35544 2026-05-09 14:23 ./usr/lib/cctbx/python3.13/scitbx/array_family/tst_rectangular_full_packed -rwxr-xr-x root/root 47864 2026-05-09 14:23 ./usr/lib/cctbx/python3.13/scitbx/array_family/tst_ref_matrix_facet -rwxr-xr-x root/root 72432 2026-05-09 14:23 ./usr/lib/cctbx/python3.13/scitbx/array_family/tst_sym_mat3 -rwxr-xr-x root/root 23256 2026-05-09 14:23 ./usr/lib/cctbx/python3.13/scitbx/array_family/tst_unsigned_float_arithmetic -rwxr-xr-x root/root 39296 2026-05-09 14:23 ./usr/lib/cctbx/python3.13/scitbx/array_family/tst_vec3 drwxr-xr-x root/root 0 2026-05-09 14:23 ./usr/lib/cctbx/python3.13/scitbx/error/ -rwxr-xr-x root/root 23328 2026-05-09 14:23 ./usr/lib/cctbx/python3.13/scitbx/error/tst_error drwxr-xr-x root/root 0 2026-05-09 14:23 ./usr/lib/cctbx/python3.13/scitbx/lbfgs/ -rwxr-xr-x root/root 60208 2026-05-09 14:23 ./usr/lib/cctbx/python3.13/scitbx/lbfgs/tst_lbfgs drwxr-xr-x root/root 0 2026-05-09 14:23 ./usr/lib/cctbx/python3.13/scitbx/math/ drwxr-xr-x root/root 0 2026-05-09 14:23 ./usr/lib/cctbx/python3.13/scitbx/math/tests/ -rwxr-xr-x root/root 43824 2026-05-09 14:23 ./usr/lib/cctbx/python3.13/scitbx/math/tests/tst drwxr-xr-x root/root 0 2026-05-09 14:23 ./usr/lib/cctbx/python3.13/scitbx/matrix/ drwxr-xr-x root/root 0 2026-05-09 14:23 ./usr/lib/cctbx/python3.13/scitbx/matrix/tests/ -rwxr-xr-x root/root 150384 2026-05-09 14:23 ./usr/lib/cctbx/python3.13/scitbx/matrix/tests/tst_cholesky -rwxr-xr-x root/root 47872 2026-05-09 14:23 ./usr/lib/cctbx/python3.13/scitbx/matrix/tests/tst_givens -rwxr-xr-x root/root 158584 2026-05-09 14:23 ./usr/lib/cctbx/python3.13/scitbx/matrix/tests/tst_householder -rwxr-xr-x root/root 117528 2026-05-09 14:23 ./usr/lib/cctbx/python3.13/scitbx/matrix/tests/tst_svd drwxr-xr-x root/root 0 2026-05-09 14:23 ./usr/lib/cctbx/python3.13/scitbx/serialization/ -rwxr-xr-x root/root 43784 2026-05-09 14:23 ./usr/lib/cctbx/python3.13/scitbx/serialization/tst_base_256 drwxr-xr-x root/root 0 2026-05-09 14:23 ./usr/lib/cctbx/python3.13/smtbx/ drwxr-xr-x root/root 0 2026-05-09 14:23 ./usr/lib/cctbx/python3.13/smtbx/refinement/ drwxr-xr-x root/root 0 2026-05-09 14:23 ./usr/lib/cctbx/python3.13/smtbx/refinement/constraints/ drwxr-xr-x root/root 0 2026-05-09 14:23 ./usr/lib/cctbx/python3.13/smtbx/refinement/constraints/tests/ -rwxr-xr-x root/root 199608 2026-05-09 14:23 ./usr/lib/cctbx/python3.13/smtbx/refinement/constraints/tests/tst_geometrical_hydrogens -rwxr-xr-x root/root 191392 2026-05-09 14:23 ./usr/lib/cctbx/python3.13/smtbx/refinement/constraints/tests/tst_reparametrisation -rwxr-xr-x root/root 162776 2026-05-09 14:23 ./usr/lib/cctbx/python3.13/smtbx/refinement/constraints/tests/tst_special_position drwxr-xr-x root/root 0 2026-05-09 14:23 ./usr/lib/cctbx/python3.14/ drwxr-xr-x root/root 0 2026-05-09 14:23 ./usr/lib/cctbx/python3.14/boost_adaptbx/ drwxr-xr-x root/root 0 2026-05-09 14:23 ./usr/lib/cctbx/python3.14/boost_adaptbx/tests/ -rwxr-xr-x root/root 35384 2026-05-09 14:23 ./usr/lib/cctbx/python3.14/boost_adaptbx/tests/tst_optional_copy drwxr-xr-x root/root 0 2026-05-09 14:23 ./usr/lib/cctbx/python3.14/iotbx/ drwxr-xr-x root/root 0 2026-05-09 14:23 ./usr/lib/cctbx/python3.14/iotbx/pdb/ -rwxr-xr-x root/root 109512 2026-05-09 14:23 ./usr/lib/cctbx/python3.14/iotbx/pdb/hybrid_36_fem -rw-r--r-- root/root 119035 2026-05-09 14:23 ./usr/lib/cctbx/python3.14/libtbx_env drwxr-xr-x root/root 0 2026-05-09 14:23 ./usr/lib/cctbx/python3.14/scitbx/ drwxr-xr-x root/root 0 2026-05-09 14:23 ./usr/lib/cctbx/python3.14/scitbx/array_family/ -rwxr-xr-x root/root 133920 2026-05-09 14:23 ./usr/lib/cctbx/python3.14/scitbx/array_family/tst_accessors -rwxr-xr-x root/root 174896 2026-05-09 14:23 ./usr/lib/cctbx/python3.14/scitbx/array_family/tst_af_1 -rwxr-xr-x root/root 51984 2026-05-09 14:23 ./usr/lib/cctbx/python3.14/scitbx/array_family/tst_af_2 -rwxr-xr-x root/root 80488 2026-05-09 14:23 ./usr/lib/cctbx/python3.14/scitbx/array_family/tst_af_3 -rwxr-xr-x root/root 731968 2026-05-09 14:23 ./usr/lib/cctbx/python3.14/scitbx/array_family/tst_af_4 -rwxr-xr-x root/root 88752 2026-05-09 14:23 ./usr/lib/cctbx/python3.14/scitbx/array_family/tst_af_5 -rwxr-xr-x root/root 68328 2026-05-09 14:23 ./usr/lib/cctbx/python3.14/scitbx/array_family/tst_mat3 -rwxr-xr-x root/root 80672 2026-05-09 14:23 ./usr/lib/cctbx/python3.14/scitbx/array_family/tst_optional_copy -rwxr-xr-x root/root 35544 2026-05-09 14:23 ./usr/lib/cctbx/python3.14/scitbx/array_family/tst_rectangular_full_packed -rwxr-xr-x root/root 47864 2026-05-09 14:23 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./usr/lib/python3/dist-packages/xcif/regression/tst_utf8.py -rw-r--r-- root/root 1507 2026-05-09 14:23 ./usr/lib/python3/dist-packages/xcif/run_tests.py drwxr-xr-x root/root 0 2026-05-09 14:23 ./usr/share/ drwxr-xr-x root/root 0 2026-05-09 14:23 ./usr/share/doc/ drwxr-xr-x root/root 0 2026-05-09 14:23 ./usr/share/doc/python3-cctbx/ -rw-r--r-- root/root 2168 2026-05-09 14:23 ./usr/share/doc/python3-cctbx/changelog.Debian.gz -rw-r--r-- root/root 4896 2026-04-30 22:59 ./usr/share/doc/python3-cctbx/changelog.gz -rw-r--r-- root/root 38654 2026-03-07 14:36 ./usr/share/doc/python3-cctbx/copyright drwxr-xr-x root/root 0 2026-05-09 14:23 ./usr/share/lintian/ drwxr-xr-x root/root 0 2026-05-09 14:23 ./usr/share/lintian/overrides/ -rw-r--r-- root/root 1 2026-03-07 14:36 ./usr/share/lintian/overrides/python3-cctbx +------------------------------------------------------------------------------+ | Post Build Sat, 16 May 2026 13:46:03 +0000 | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup Sat, 16 May 2026 13:46:03 +0000 | +------------------------------------------------------------------------------+ Purging /build/reproducible-path Not cleaning session: cloned chroot in use +------------------------------------------------------------------------------+ | Summary Sat, 16 May 2026 13:46:08 +0000 | +------------------------------------------------------------------------------+ Build Architecture: amd64 Build Type: any Build-Space: 12812660 Build-Time: 2097 Distribution: unstable Host Architecture: amd64 Install-Time: 3 Job: /srv/rebuilderd/tmp/rebuilderdRtDovd/inputs/cctbx_2026.4+ds2+~3.28.0+ds1-2.dsc Machine Architecture: amd64 Package: cctbx Package-Time: 2112 Source-Version: 2026.4+ds2+~3.28.0+ds1-2 Space: 12812660 Status: successful Version: 2026.4+ds2+~3.28.0+ds1-2 -------------------------------------------------------------------------------- Finished at 2026-05-16T13:45:57Z Build needed 00:35:12, 12812660k disk space build artifacts stored in /srv/rebuilderd/tmp/rebuilderdRtDovd/out checking libcctbx-dev_2026.4+ds2+~3.28.0+ds1-2_amd64.deb: size... sha256... sha1... md5... all OK checking libcctbx0-dbgsym_2026.4+ds2+~3.28.0+ds1-2_amd64.deb: size... md5... sha1... sha256... all OK checking libcctbx0_2026.4+ds2+~3.28.0+ds1-2_amd64.deb: size... sha256... md5... sha1... all OK checking python3-cctbx-dbgsym_2026.4+ds2+~3.28.0+ds1-2_amd64.deb: size... sha1... md5... sha256... all OK checking python3-cctbx_2026.4+ds2+~3.28.0+ds1-2_amd64.deb: size differs for python3-cctbx_2026.4+ds2+~3.28.0+ds1-2_amd64.deb